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We present here a report produced by a workshop on 'Addressing failures in exascale computing' held in Park City, Utah, 4–11 August 2012. The charter of this workshop was to establish a common taxonomy about resilience across all the levels in a computing system, discuss existing knowledge on resilience across the various hardware and software layers of an(More)
While a number of User-Level Protocols have been developed to reduce the gap between the performance capabilities of the physical network and the performance actually available, applications that have already been developed on kernel based protocols such as TCP have largely been ignored. There is a need to make these existing TCP applications take advantage(More)
Although job scheduling has been much studied, the issue of providing deadline guarantees in this context has not been addressed. In this paper, we propose a new scheme, termed as QoPS to provide Quality of Service (QoS) in the response time given to the end user in the form of guarantees in the completion time to submitted independent parallel jobs. To the(More)
The Message Passing Interface (MPI) is one of the most widely used programming models for parallel computing. However, the amount of memory available to an MPI process is limited by the amount of local memory within a compute node. Partitioned Global Address Space (PGAS) models such as Unified Parallel C (UPC) are growing in popularity because of their(More)
Considerable research has focused on the problem of scheduling dynamically arriving independent parallel jobs on a given set of resources. There has also been some recent work in the direction of providing differentiated service to different classes of jobs using statically or dynamically calculated priorities assigned to the jobs. However, the potential(More)
Though traditional Ethernet based network architectures such as Gigabit Ethernet have suffered from a huge performance difference as compared to other high performance networks (e.g, InfiniBand, Quadrics, Myrinet), Ethernet has continued to be the most widely used network architecture today. This trend is mainly attributed to the low cost of the network(More)
Between July 18(th) and 24(th) 2010, 26 leading microbial ecology, computation, bioinformatics and statistics researchers came together in Snowbird, Utah (USA) to discuss the challenge of how to best characterize the microbial world using next-generation sequencing technologies. The meeting was entitled "Terabase Metagenomics" and was sponsored by the(More)
The Sockets Direct Protocol (SDP) has been proposed recently in order to enable sockets based applications to take advantage of the enhanced features provided by InfiniBand Architecture. In this paper, we study the benefits and limitations of an implementation of SDP. We first analyze the performance of SDP based on a detailed suite of micro-benchmarks.(More)
As high-end computing systems continue to grow in scale, recent advances in multi-and many-core architectures have pushed such growth toward more denser architec-tures, that is, more processing elements per physical node, rather than more physical nodes themselves. Although a large number of scientific applications have relied so far on an MPI-everywhere(More)
—This paper presents our first experiences in mapping and optimizing genomic sequence search onto the massively parallel IBM Blue Gene/P (BG/P) platform. Specifically, we performed our work on mpiBLAST, a parallel sequence-search code that has been optimized on numerous supercomputing environments. In doing so, we identify several critical performance(More)