Motivation: Complex computational pipelines are becoming a staple of modern scientific research. Often these pipelines are resource intensive and require days of computing time. In such cases, it makes sense to run them over distributed computer clusters where they can take advantage of the aggregated resources of many powerful computers. In addition to this, researchers often want to integrate...

Complex computational pipelines are becoming a staple of modern scientific research. Often these pipelines are resource intensive and require days of computing time. In such cases, it makes sense to run them over high performance computing (HPC) clusters where they can take advantage of the aggregated resources of many powerful computers. In addition to this, researchers often want to integrate...

Structural brain networks may be reconstructed from diffusion MRI tractography data and have great potential to further our understanding of the topological organisation of brain structure in health and disease. Network reconstruction is complex and involves a series of processesing methods including anatomical parcellation, registration, fiber orientation estimation and whole-brain fiber tract...

Next generation sequencing (NGS) has been leading the genetic study of human disease into an era of unprecedented productivity. Many bioinformatics pipelines have been developed to call variants from NGS data. The performance of these pipelines depends crucially on the variant caller used and on the calling strategies implemented. We studied the performance of four prevailing callers, SAMtools,...

The growing importance of subject-specific modeling and simulation in medical applications has increased the need for automatic techniques for creating high-quality meshes directly from medical data. We discuss the main aspects related to volumetric mesh generation from iso-surfaces. We take a practical approach, and the main focus of this paper is evaluating processing pipelines using widely a...

The east Delta horizontal expansion reclamation project is one of the Egyptian reclamation projects which was implemented in 1981. The project area is approximately equal to 366,500 Feddans. It's located in Ismalia Governorate at kilo 96.5 Cairo-Ismalia road. The irrigation system in this project depends on pumping stations at the right bank of Ismalia Canal through pipelines. The pipelines wer...

Energy efficient computing is a major concern in all EDA industry, due mainly to cost, reliability and feasibility: temperature and power are the main performance limiters. Dynamic Variable Stages Pipelines allows to improve processors and datapaths throughput while reducing their energy consumptions. When the clock frequency is lowered, more computations can be performed in a combinatorial way...

SRAM (static random access memory)-based pipelined algorithmic solutions have become competitive alternatives to TCAMs (ternary content addressable memories) for high-throughput IP lookup. Multiple pipelines can be utilized in parallel to improve the throughput further. However, several challenges must be addressed to make such solutions feasible. First, the memory distribution over different p...

In prior work it has been shown that the design of scientific workflows can benefit from a collection-oriented modeling paradigm which views scientific workflows as pipelines of XML stream processors. In this paper, we present approaches for exploiting data parallelism in XML processing pipelines through novel compilation strategies to the Map-Reduce framework. Pipelines in our approach consist...