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首页> 外文会议>IEEE International Parallel Distributed Processing Symposium >A Comparison of a Campus Cluster and Open Science Grid Platforms for Protein-Guided Assembly Using Pegasus Workflow Management System
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A Comparison of a Campus Cluster and Open Science Grid Platforms for Protein-Guided Assembly Using Pegasus Workflow Management System

机译：使用Pegasus工作流管理系统比较校园集群和开放式科学网格平台进行蛋白质引导的组装

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摘要

Scientific workflows are a useful tool for managing large and complex computational tasks. Due to its intensive resource requirements, the scientific workflows are often executed on distributed platforms, including campus clusters, grids and clouds. In this paper we build a scientific workflow for blast2cap3, the protein-guided assembly, using the Pegasus Workflow Management System (Pegasus WMS). The modularity of blast2cap3 allows us to decompose the existing serial approach on multiple tasks, some of which can be run in parallel. Afterwards, this workflow is deployed on two distributed execution platforms: Sandhills, the University of Nebraska Campus Cluster, and the Open Science Grid (OSG). We compare and evaluate the performance of the built workflow for the both platforms. Furthermore, we also investigate the influence of the number of clusters of transcripts in the blast2cap3 workflow over the total running time. The performed experiments show that the Pegasus WMS implementation of blast2cap3 significantly reduces the running time compared to the current serial implementation of blast2cap3 for more than 95 %. Although OSG provides more computational resources than Sandhills, our workflow experimental runs have better running time on Sandhills. Moreover, the selection of 300 clusters of transcripts gives the optimum performance with the resources allocated from Sandhills.
机译：科学的工作流程是用于管理大型和复杂的计算任务的有用工具。由于需要大量资源，因此科学工作流通常在包括校园集群，网格和云在内的分布式平台上执行。在本文中，我们使用Pegasus工作流管理系统（Pegasus WMS）为blast2cap3（蛋白质引导的装配体）建立了科学的工作流程。 blast2cap3的模块性使我们能够分解现有的串行方法用于多个任务，其中一些任务可以并行运行。之后，此工作流将部署在两个分布式执行平台上：Sandhills，内布拉斯加州大学校园集群和开放科学网格（OSG）。我们比较并评估了两个平台上已构建工作流程的性能。此外，我们还研究了blast2cap3工作流程中的转录本簇数对总运行时间的影响。进行的实验表明，与当前blast2cap3的串行实现相比，blast2cap3的Pegasus WMS实现显着减少了运行时间，超过了95％。尽管OSG比Sandhills提供更多的计算资源，但我们的工作流程实验运行在Sandhills上具有更好的运行时间。此外，从Sandhills分配的资源中，选择300个成绩单簇可提供最佳性能。

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