基于HDF5实现多区结构网格CFD程序的并行I/O  

HDF5Based Parallel I/O Techniques for Multi-Zone Structured Grids CFD Applications

作　　者：杨丽鹏[1] 车永刚[1] 

机构地区：[1]国防科学技术大学并行与分布处理国防科技重点实验室,长沙410073

出　　处：《计算机研究与发展》2015年第4期861-868,共8页Journal of Computer Research and Development

基　　金：航天支撑基金项目(2012-HT-GFKD-19);空气动力学国家重点实验室基金项目(SKLA20130105)

摘　　要：计算流体动力学(computational fluid dynamics,CFD)是高性能计算重要应用领域之一,其计算涉及大量数据访问.在大规模并行计算情况下,串行I/O的性能与计算能力不匹配,I/O成为性能瓶颈.并行I/O是解决这一问题的主要途径之一.针对一个真实多区结构网格CFD并行程序HOSTA(high-order simulator for aerodynamics),基于HDF5(hierarchical data format v5)数据存储格式及其并行I/O编程接口,实现了其主要数据的并行I/O.在一套有6个I/O服务器结点的高性能计算机系统上,采用实际CFD算例进行了性能测试.对一个三角翼算例,并行I/O相对于串行I/O的性能加速比达到21.27,最高获得5.81GBps的I/O吞吐率,并使程序整体性能提高10%以上;对一个网格规模更大的简单翼型算例,并行I/O最高获得了6.72GBps的I/O吞吐率.Computational fluid dynamics （CFD ） is one of the most important high performance computing （HPC） areas .CFD applications commonly access large volumes of data .In case of large‐scale CFD parallel computing ,serial I/O performance does not match the computing performance , hence it becomes the performance bottleneck .Parallel I/O is an effective way to solve this problem . HDF5 （hierarchical data format v5） has provided excellent mechanisms to manage scientific data as well as effective ways to implement parallel I/O .High‐order simulator for aerodynamics （HOSTA） is a multi‐zone structured grids CFD application that can solve real world flow problems .This paper implements the parallel I/O method in HOSTA ,based on the HDF5 file format and corresponding parallel I/O application programming interface .Detailed performance evaluation is performed with real CFD simulation cases on a HPC system equipped with 6 I/O service nodes .The results show that our method is both scalable and efficient .For a delta wing test case ,parallel I/O achieves the performance speedup of 21 .27 compared with the serial I/O .It achieves maximal I/O throughput of 5 .81 GBps and improves the application＆#39;s performance by over 10% ,as compared with the original code .For a simple airfoil test case with larger grid size ,our parallel I/O achieves maximal I/O throughput of 6 .72 GBps .

关 键 词：计算流体动力学 并行I/O 层次式数据存储格式(HDF5) 多区结构网格 I/O吞吐率 

分 类 号：TP302.10[自动化与计算机技术—计算机系统结构]