Evaluation of vectorization potential of Graph500 on Intel's Xeon Phi

Graph500 is a data intensive application for high performance computing and it is an increasingly important workload because graphs are a core part of most analytic applications. So far there is no work that examines if Graph500 is suitable for vectorization mostly due a lack of vector memory instructions for irregular memory accesses. The Xeon Phi is a massively parallel processor recently released by Intel with new features such as a wide 512-bit vector unit and vector scatter/gather instructions. Thus, the Xeon Phi allows for more efficient parallelization of Graph500 that is combined with vectorization. In this paper we vectorize Graph500 and analyze the impact of vectorization and prefetching on the Xeon Phi. We also show that the combination of parallelization, vectorization and prefetching yields a speedup of 27% over a parallel version with prefetching that does not leverage the vector capabilities of the Xeon Phi.The research leading to these results has received funding from the European Research Council under the European Unions 7th FP (FP/2007- 2013) / ERC GA n. 321253. It has been partially funded by the Spanish Government (TIN2012-34557)Peer ReviewedPostprint (published version

A Library for Pattern-based Sparse Matrix Vector Multiply

Pattern-based Representation (PBR) is a novel approach to improving the performance of Sparse Matrix-Vector Multiply (SMVM) numerical kernels. Motivated by our observation that many matrices can be divided into blocks that share a small number of distinct patterns, we generate custom multiplication kernels for frequently recurring block patterns. The resulting reduction in index overhead significantly reduces memory bandwidth requirements and improves performance. Unlike existing methods, PBR requires neither detection of dense blocks nor zero filling, making it particularly advantageous for matrices that lack dense nonzero concentrations. SMVM kernels for PBR can benefit from explicit prefetching and vectorization, and are amenable to parallelization. The analysis and format conversion to PBR is implemented as a library, making it suitable for applications that generate matrices dynamically at runtime. We present sequential and parallel performance results for PBR on two current multicore architectures, which show that PBR outperforms available alternatives for the matrices to which it is applicable, and that the analysis and conversion overhead is amortized in realistic application scenarios

Improving I/O performance through an in-kernel disk simulator

This paper presents two mechanisms that can significantly improve the I/O performance of both hard and solid-state drives for read operations: KDSim and REDCAP. KDSim is an in-kernel disk simulator that provides a framework for simultaneously simulating the performance obtained by different I/O system mechanisms and algorithms, and for dynamically turning them on and off, or selecting between different options or policies, to improve the overall system performance. REDCAP is a RAM-based disk cache that effectively enlarges the built-in cache present in disk drives. By using KDSim, this cache is dynamically activated/deactivated according to the throughput achieved. Results show that, by using KDSim and REDCAP together, a system can improve its I/O performance up to 88% for workloads with some spatial locality on both hard and solid-state drives, while it achieves the same performance as a ‘regular system’ for workloads with random or sequential access patterns.Peer ReviewedPostprint (author's final draft

Redesigning OP2 Compiler to Use HPX Runtime Asynchronous Techniques

Maximizing parallelism level in applications can be achieved by minimizing overheads due to load imbalances and waiting time due to memory latencies. Compiler optimization is one of the most effective solutions to tackle this problem. The compiler is able to detect the data dependencies in an application and is able to analyze the specific sections of code for parallelization potential. However, all of these techniques provided with a compiler are usually applied at compile time, so they rely on static analysis, which is insufficient for achieving maximum parallelism and producing desired application scalability. One solution to address this challenge is the use of runtime methods. This strategy can be implemented by delaying certain amount of code analysis to be done at runtime. In this research, we improve the parallel application performance generated by the OP2 compiler by leveraging HPX, a C++ runtime system, to provide runtime optimizations. These optimizations include asynchronous tasking, loop interleaving, dynamic chunk sizing, and data prefetching. The results of the research were evaluated using an Airfoil application which showed a 40-50% improvement in parallel performance.Comment: 18th IEEE International Workshop on Parallel and Distributed Scientific and Engineering Computing (PDSEC 2017

A Bulk-Parallel Priority Queue in External Memory with STXXL

We propose the design and an implementation of a bulk-parallel external memory priority queue to take advantage of both shared-memory parallelism and high external memory transfer speeds to parallel disks. To achieve higher performance by decoupling item insertions and extractions, we offer two parallelization interfaces: one using "bulk" sequences, the other by defining "limit" items. In the design, we discuss how to parallelize insertions using multiple heaps, and how to calculate a dynamic prediction sequence to prefetch blocks and apply parallel multiway merge for extraction. Our experimental results show that in the selected benchmarks the priority queue reaches 75% of the full parallel I/O bandwidth of rotational disks and and 65% of SSDs, or the speed of sorting in external memory when bounded by computation.Comment: extended version of SEA'15 conference pape

Breadth First Search Vectorization on the Intel Xeon Phi

Breadth First Search (BFS) is a building block for graph algorithms and has recently been used for large scale analysis of information in a variety of applications including social networks, graph databases and web searching. Due to its importance, a number of different parallel programming models and architectures have been exploited to optimize the BFS. However, due to the irregular memory access patterns and the unstructured nature of the large graphs, its efficient parallelization is a challenge. The Xeon Phi is a massively parallel architecture available as an off-the-shelf accelerator, which includes a powerful 512 bit vector unit with optimized scatter and gather functions. Given its potential benefits, work related to graph traversing on this architecture is an active area of research. We present a set of experiments in which we explore architectural features of the Xeon Phi and how best to exploit them in a top-down BFS algorithm but the techniques can be applied to the current state-of-the-art hybrid, top-down plus bottom-up, algorithms. We focus on the exploitation of the vector unit by developing an improved highly vectorized OpenMP parallel algorithm, using vector intrinsics, and understanding the use of data alignment and prefetching. In addition, we investigate the impact of hyperthreading and thread affinity on performance, a topic that appears under researched in the literature. As a result, we achieve what we believe is the fastest published top-down BFS algorithm on the version of Xeon Phi used in our experiments. The vectorized BFS top-down source code presented in this paper can be available on request as free-to-use software

Improving OpenStack Swift interaction with the I/O stack to enable software defined storage

This paper analyses how OpenStack Swift, a distributed object storage service for a globally used middleware, interacts with the I/O subsystem through the Operating System. This interaction, which seems organised and clean on the middleware side, becomes disordered on the device side when using mechanical disk drives, due to the way threads are used internally to request data. We will show that only modifying the Swift threading model we achieve an 18% mean improvement in performance with objects larger than 512 KiB and obtain a similar performance with smaller objects. Compared to the original scenario, the performance obtained on both scenarios is obtained in a fair way: the bandwidth is shared equally between concurrently accessed objects. Moreover, this threading model allows us to apply techniques for Software Defined Storage (SDS). We show an implementation of a Bandwidth Differentiation technique that can control each data stream and that guarantees a high utilization of the device.The research leading to these results has received funding from the European Community under the IOStack (H2020-ICT-2014-7-1) project, by the Spanish Ministry of Economy and Competitiveness under the TIN2015-65316-P grant and by the Catalan Government under the 2014-SGR-1051 grant. To learn more about the IOStack H2020 project, please visit http:nnwww.iostack.eu.Peer ReviewedPostprint (author's final draft

Using Intelligent Prefetching to Reduce the Energy Consumption of a Large-scale Storage System

Many high performance large-scale storage systems will experience significant workload increases as their user base and content availability grow over time. The U.S. Geological Survey (USGS) Earth Resources Observation and Science (EROS) center hosts one such system that has recently undergone a period of rapid growth as its user population grew nearly 400% in just about three years. When administrators of these massive storage systems face the challenge of meeting the demands of an ever increasing number of requests, the easiest solution is to integrate more advanced hardware to existing systems. However, additional investment in hardware may significantly increase the system cost as well as daily power consumption. In this paper, we present evidence that well-selected software level optimization is capable of achieving comparable levels of performance without the cost and power consumption overhead caused by physically expanding the system. Specifically, we develop intelligent prefetching algorithms that are suitable for the unique workloads and user behaviors of the world\u27s largest satellite images distribution system managed by USGS EROS. Our experimental results, derived from real-world traces with over five million requests sent by users around the globe, show that the EROS hybrid storage system could maintain the same performance with over 30% of energy savings by utilizing our proposed prefetching algorithms, compared to the alternative solution of doubling the size of the current FTP server farm

Rough Sets Clustering and Markov model for Web Access Prediction

Discovering user access patterns from web access log is increasing the importance of information to build up adaptive web server according to the individual user’s behavior. The variety of user behaviors on accessing information also grows, which has a great impact on the network utilization. In this paper, we present a rough set clustering to cluster web transactions from web access logs and using Markov model for next access prediction. Using this approach, users can effectively mine web log records to discover and predict access patterns. We perform experiments using real web trace logs collected from www.dusit.ac.th servers. In order to improve its prediction ration, the model includes a rough sets scheme in which search similarity measure to compute the similarity between two sequences using upper approximation