high performance computing on graphics processing units: hgpu.org

Due to the very long timescales involved (us-s), theoretical modeling of fundamental biological processes including folding, misfolding, and mechanical unraveling of biomolecules, under physiologically relevant conditions, is challenging even for distributed computing systems. Graphics Processing Units (GPUs) are emerging as an alternative programming platform to the more traditional CPUs as they provide high raw computational […]

We present and evaluate GPU Bucket Sort, a parallel deterministic sample sort algorithm for many-core GPUs. Our method is considerably faster than Thrust Merge (Satish et.al., Proc. IPDPS 2009), the best comparison-based sorting algorithm for GPUs, and it is as fast as the new randomized sample sort for GPUs by Leischner et.al. (to appear in […]

Simulations of standard 1D and 2D quantum walks have been performed within Quantum Computer Simulator (QCS system) environment and with the use of GPU supported by CUDA technology. In particular, simulations of quantum walks may be seen as an appropriate benchmarks for testing calculational power of the processors used. It was demonstrated by a series […]

Parallel computing plays a major role in almost all the fields from research to major concern problem solving purposes. Many researches are till now focusing towards the area of parallel processing. Nowadays it extends its usage towards the end user application such as GPU as well as multi-core processor development. The bandwidth measurement is essential […]

The Murchison Widefield Array (MWA) is a next-generation radio telescope currently under construction in the remote Western Australia Outback. Raw data will be generated continuously at 5GiB/s, grouped into 8s cadences. This high throughput motivates the development of on-site, real time processing and reduction in preference to archiving, transport and off-line processing. Each batch of […]

Online adaptive radiation therapy (ART) has great promise to significantly reduce normal tissue toxicity and/or improve tumor control through real-time treatment adaptations based on the current patient anatomy. However, the major technical obstacle for clinical realization of online ART, namely the inability to achieve real-time efficiency in treatment re-planning, has yet to be solved. To […]

Purpose: To develop an algorithm for real-time volumetric image reconstruction and 3D tumor localization based on a single x-ray projection image for lung cancer radiotherapy. Methods: Given a set of volumetric images of a patient at N breathing phases as the training data, we perform deformable image registration between a reference phase and the other […]

Direct numerical simulation (DNS) for gas-solid flow is implemented on a multi-scale supercomputing system, Mole-8.5, featuring massive parallel GPU-CPU hybrid computing, for which the lattice Boltzmann method (LBM) is deployed together with the immersed moving boundary (IMB) method and discrete element method (DEM). A two-dimensional suspension with about 1,166,400 75-micron solid particles distributed in an […]

We present an algorithm to automatically derive Feynman rules for lattice perturbation theory in background field gauge. Vertices with an arbitrary number of both background and quantum legs can be derived automatically from both gluonic and fermionic actions. The algorithm is a generalisation of our earlier algorithm based on prior work by L”uscher and Weisz. […]

Numerical solution of reaction-diffusion equations in three dimensions is one of the most challenging applied mathematical problems. Since these simulations are very time consuming, any ideas and strategies aiming at the reduction of CPU time are important topics of research. A general and robust idea is the parallelization of source codes/programs. Recently, the technological development […]

The scientific community is presently witnessing an unprecedented growth in the quality and quantity of data sets coming from simulations and real-world experiments. To access effectively and extract the scientific content of such large-scale data sets (often sizes are measured in hundreds or even millions of Gigabytes) appropriate tools are needed. Visual data exploration and […]

We present magneto-hydrodynamic simulation results for heterogeneous systems. Heterogeneous architectures combine high floating point performance many-core units hosted in conventional server nodes. Examples include Graphics Processing Units (GPU’s) and Cell. They have potentially large gains in performance, at modest power and monetary cost. We implemented a magneto-hydrodynamic (MHD) simulation code on a variety of heterogeneous […]