Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.)最新文献

CloudBridge: a Simple Cross-Cloud Python Library. CloudBridge：一个简单的跨云 Python 库。

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2016-07-01 Epub Date: 2016-07-17 DOI: 10.1145/2949550.2949648

Nuwan Goonasekera, Andrew Lonie, James Taylor, Enis Afgan

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引用次数: 0

On Automating XSEDE User Ticket Classification 自动化XSEDE用户票证分类

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616549

Gwang Son, Victor Hazlewood, G. D. Peterson

引用次数: 11

Evaluating Distributed Platforms for Protein-Guided Scientific Workflow 评估分布式平台的蛋白质指导的科学工作流程

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616551

Natasha Pavlovikj, Kevin Begcy, S. Behera, Malachy T. Campbell, H. Walia, J. Deogun

{"title":"Evaluating Distributed Platforms for Protein-Guided Scientific Workflow","authors":"Natasha Pavlovikj, Kevin Begcy, S. Behera, Malachy T. Campbell, H. Walia, J. Deogun","doi":"10.1145/2616498.2616551","DOIUrl":"https://doi.org/10.1145/2616498.2616551","url":null,"abstract":"Complex and large-scale applications in different scientific disciplines are often represented as a set of independent tasks, known as workflows. Many scientific workflows have intensive resource requirements. Therefore, different distributed platforms, including campus clusters, grids and clouds are used for efficient execution of these workflows. In this paper we examine the performance and the cost of running the Pegasus Workflow Management System (Pegasus WMS) implementation of blast2cap3, the protein-guided assembly approach, on three different execution platforms: Sandhills, the University of Nebraska Campus Cluster, the academic grid Open Science Gird (OSG), and the commercial cloud Amazon EC2. Furthermore, the behavior of the blast2cap3 workflow was tested with different number of tasks. For the used workflows and execution platforms, we perform multiple runs in order to compare the total workflow running time, as well as the different resource availability over time. Additionally, for the most interesting runs, the number of running versus the number of idle jobs over time was analyzed for each platform. The performed experiments show that using the Pegasus WMS implementation of blast2cap3 with more than 100 tasks significantly reduces the running time for all execution platforms. In general, for our workflow, better performance and resource usage were achieved when Amazon EC2 was used as an execution platform. However, due to the Amazon EC2 cost, the academic distributed systems can sometimes be a good alternative and have excellent performance, especially when there are plenty of resources available.","PeriodicalId":93364,"journal":{"name":"Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.)","volume":"16 1","pages":"38:1-38:8"},"PeriodicalIF":0.0,"publicationDate":"2014-07-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75261615","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Challenges in particle tracking in turbulence on a massive scale 大规模湍流中粒子追踪的挑战

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616526

D. Buaria, P. Yeung

引用次数: 0

Performance Study of a Minimalistic Simulator on XSEDE Massively Parallel Systems XSEDE大规模并行系统的简约模拟器性能研究

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616512

Rong Rong, J. Hao, Jason Liu

{"title":"Performance Study of a Minimalistic Simulator on XSEDE Massively Parallel Systems","authors":"Rong Rong, J. Hao, Jason Liu","doi":"10.1145/2616498.2616512","DOIUrl":"https://doi.org/10.1145/2616498.2616512","url":null,"abstract":"Scalable Simulation Framework (SSF), a parallel simulation application programming interface (API) for large-scale discrete-event models, has been widely adopted in many areas. This paper presents a simplified and yet more streamlined implementation, called MiniSSF. MiniSSF maintains the core design concept of SSF, while removing some of the complex but rarely used features, for sake of efficiency. It also introduces several new features that can greatly simplify model development efforts and/or improve the simulator's performance. More specifically, an automated compiler-based source-code translation scheme has been adopted in MiniSSF to enable scalable process-oriented simulation using handcrafted threads. A hierarchical hybrid synchronization algorithm has been incorporated in the simulator to improve parallel performance. Also, a new set of platform-independent API functions have been added for developing simulation models to be executed transparently on different parallel computing platforms. In this paper, we report performance results from experiments on different XSEDE platforms to assess the performance and scalability of MiniSSF. It is shown that the simulator can achieve superior performance. The simulator can adapt its synchronization according to the model's computation and communication demands, as well as the underlying parallel platform. The results also suggest that more automatic adaptation and fine-grained performance tuning is necessary for handling more complex large-scale simulation scenarios.","PeriodicalId":93364,"journal":{"name":"Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.)","volume":"11 1","pages":"15:1-15:8"},"PeriodicalIF":0.0,"publicationDate":"2014-07-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85630399","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 7

Dynamically Provisioning Portable Gateway Infrastructure Using Docker and Agave 使用Docker和Agave动态配置可移植网关基础设施

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616561

R. Dooley, Joe Stubbs

引用次数: 7

Accelerating TauDEM as a Scalable Hydrological Terrain Analysis Service on XSEDE 加速TauDEM作为XSEDE上可扩展的水文地形分析服务

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616510

Ye Fan, Yan Y. Liu, Shaowen Wang, D. Tarboton, Ahmet Artu Yildirim, Nancy Wilkins-Diehr

引用次数: 11

Gateways to Discovery: Cyberinfrastructure for the Long Tail of Science 探索之门:科学长尾的网络基础设施

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616540

R. Moore, C. Baru, Diane A. Baxter, Geoffrey Fox, A. Majumdar, P. Papadopoulos, W. Pfeiffer, R. Sinkovits, Shawn M. Strande, M. Tatineni, R. Wagner, Nancy Wilkins-Diehr, M. Norman

{"title":"Gateways to Discovery: Cyberinfrastructure for the Long Tail of Science","authors":"R. Moore, C. Baru, Diane A. Baxter, Geoffrey Fox, A. Majumdar, P. Papadopoulos, W. Pfeiffer, R. Sinkovits, Shawn M. Strande, M. Tatineni, R. Wagner, Nancy Wilkins-Diehr, M. Norman","doi":"10.1145/2616498.2616540","DOIUrl":"https://doi.org/10.1145/2616498.2616540","url":null,"abstract":"NSF-funded computing centers have primarily focused on delivering high-performance computing resources to academic researchers with the most computationally demanding applications. But now that computational science is so pervasive, there is a need for infrastructure that can serve more researchers and disciplines than just those at the peak of the HPC pyramid. Here we describe SDSC's Comet system, which is scheduled for production in January 2015 and was designed to address the needs of a much larger and more expansive science community-- the \"long tail of science\". Comet will have a peak performance of 2 petaflop/s, mostly delivered using Intel's next generation Xeon processor. It will include some large-memory and GPU-accelerated nodes, node-local flash memory, 7 PB of Performance Storage, and 6 PB of Durable Storage. These features, together with the availability of high performance virtualization, will enable users to run complex, heterogeneous workloads on a single integrated resource.","PeriodicalId":93364,"journal":{"name":"Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.)","volume":"1 1","pages":"39:1-39:8"},"PeriodicalIF":0.0,"publicationDate":"2014-07-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89852771","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 44

A leap forward with UTK's Cray XC30 UTK的Cray XC30是一个飞跃

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616546

M. Fahey

引用次数: 1

A Three-Semester, Interdisciplinary Approach to Parallel Programming in a Liberal Arts University Setting 文科大学三学期跨学科并行编程方法

Proceedings of XSEDE16 : Diversity, Big Data, and Science at Scale : July 17-21, 2016, Intercontinental Miami Hotel, Miami, Florida, USA. Conference on Extreme Science and Engineering Discovery Environment (5th : 2016 : Miami, Fla.) Pub Date : 2014-07-13 DOI: 10.1145/2616498.2616567

Mike Morris, Karl Frinkle

引用次数: 3