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Posts

Apr, 15

Portable, high-performance containers for HPC

Building and deploying software on high-end computing systems is a challenging task. High performance applications have to reliably run across multiple platforms and environments, and make use of site-specific resources while resolving complicated software-stack dependencies. Containers are a type of lightweight virtualization technology that attempt to solve this problem by packaging applications and their environments […]
Apr, 15

Faster across the PCIe bus: A GPU library for lightweight decompression

This short paper present a collection of GPU lightweight decompression algorithms implementations within a FOSS library, Giddy – the first to be published to offer such function-ality. As the use of compression is important in ameliorating PCIe data transfer bottlenecks, we believe this library and its constituent implementations can serve as useful building blocks in […]
Apr, 15

Unfolding and Shrinking Neural Machine Translation Ensembles

Ensembling is a well-known technique in neural machine translation (NMT). Instead of a single neural net, multiple neural nets with the same topology are trained separately, and the decoder generates predictions by averaging over the individual models. Ensembling often improves the quality of the generated translations drastically. However, it is not suitable for production systems […]
Apr, 15

A Domain Specific Language for Performance Portable Molecular Dynamics Algorithms

Developers of Molecular Dynamics (MD) codes face significant challenges when adapting existing simulation packages to new hardware. In a continuously diversifying hardware landscape it becomes increasingly difficult for scientists to be experts both in their own domain (physics/chemistry/biology) and specialists in the low level parallelisation and optimisation of their codes. To address this challenge, we […]
Apr, 15

Parallelized Kendall’s Tau Coefficient Computation via SIMD Vectorized Sorting On Many-Integrated-Core Processors

Pairwise association measure is an important operation in data analytics. Kendall’s tau coefficient is one widely used correlation coefficient identifying non-linear relationships between ordinal variables. In this paper, we investigated a parallel algorithm accelerating all-pairs Kendall’s tau coefficient computation via single instruction multiple data (SIMD) vectorized sorting on Intel Xeon Phis by taking advantage of […]
Apr, 11

Acceleration of Linear Finite-Difference Poisson-Boltzmann Methods on Graphics Processing Units

Electrostatic interactions play crucial roles in biophysical processes such as protein folding and molecular recognition. Poisson-Boltzmann equation (PBE)-based models have emerged as widely used in modeling these important processes. Though great efforts have been put into developing efficient PBE numerical models, challenges still remain due to the high dimensionality of typical biomolecular systems. In this […]
Apr, 11

Machine Learning from Streaming Data in Heterogeneous Computing Environments

With the advent of many-core general-purpose processors (CPUs), the use of an increased number of cores has provided a certain speedup for algorithms that can be parallized. Nowadays, there are distributed and parallel data processing platforms, such as Apache Flink, which inherently makes use of parallel computing. On the other hand, graphics processors(GPUs) offers high […]
Apr, 11

Performance and energy optimization of the iterative solution of sparse linear systems on multicore processors

Large sparse systems of linear equations are ubiquitous problems in diverse scientific and engineering applications and big-data analytics. The interest of these applications and the fact that the solution of the linear system is usually a significant time-consuming stage has promoted the design and high-performance implementation of numerous matrix storage formats, algorithms, and libraries to […]
Apr, 11

A modular GPU raytracer using OpenCL for non-interactive graphics

We describe the development of a modular plugin based raytracer renderer called RenderGirl suitable for running inside the OpenCL framework. We aim to take advantage of heterogeneous computing devices such as GPUs and many-core CPUs, focusing on parallelism. We implemented the traditional partitioning scheme called bounding volume hierarchies, where each scene is hierarchically subdivided into […]
Apr, 11

Vectorization of Hybrid Breadth First Search on the Intel Xeon Phi

The Breadth-First Search (BFS) algorithm is an important building block for graph analysis of large datasets. The BFS parallelisation has been shown to be challenging because of its inherent characteristics, including irregular memory access patterns, data dependencies and workload imbalance, that limit its scalability. We investigate the optimisation and vectorisation of the hybrid BFS (a […]
Apr, 7

Design Exploration of AES Accelerators on FPGAs and GPUs

The embedded systems are increasingly becoming a key technological component of all kinds of complex technical systems and an exhaustive analysis of the state of the art of all current performance with respect to architectures, design methodologies, test and applications could be very interesting. The Advanced Encryption Standard (AES), based on the well-known algorithm Rijndael, […]
Apr, 7

In-Datacenter Performance Analysis of a Tensor Processing Unit

Many architects believe that major improvements in cost-energy-performance must now come from domain-specific hardware. This paper evaluates a custom ASIC-called a Tensor Processing Unit (TPU) – deployed in datacenters since 2015 that accelerates the inference phase of neural networks (NN). The heart of the TPU is a 65,536 8-bit MAC matrix multiply unit that offers […]
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