Parallel implementation of the TRANSIMS micro-simulation

This paper describes the parallel implementation of the TRANSIMS traffic micro-simulation. The parallelization method is domain decomposition, which means that each CPU of the parallel computer is responsible for a different geographical area of the simulated region. We describe how information between domains is exchanged, and how the transportation network graph is partitioned. An adaptive scheme is used to optimize load balancing. We then demonstrate how computing speeds of our parallel micro-simulations can be systematically predicted once the scenario and the computer architecture are known. This makes it possible, for example, to decide if a certain study is feasible with a certain computing budget, and how to invest that budget. The main ingredients of the prediction are knowledge about the parallel implementation of the micro-simulation, knowledge about the characteristics of the partitioning of the transportation network graph, and knowledge about the interaction of these quantities with the computer system. In particular, we investigate the differences between switched and non-switched topologies, and the effects of 10 Mbit, 100 Mbit, and Gbit Ethernet. keywords: Traffic simulation, parallel computing, transportation planning, TRANSIM

JOSTLE: multilevel graph partitioning software: an overview

In this chapter we look at JOSTLE, the multilevel graph-partitioning software package, and highlight some of the key research issues that it addresses. We first outline the core algorithms and place it in the context of the multilevel refinement paradigm. We then look at issues relating to its use as a tool for parallel processing and, in particular, partitioning in parallel. Since its first release in 1995, JOSTLE has been used for many mesh-based parallel scientific computing applications and so we also outline some enhancements such as multiphase mesh-partitioning, heterogeneous mapping and partitioning to optimise subdomain shap

Mesh Partitioning Algorithm Based on Parallel Finite Element Analysis and Its Actualization

In parallel computing based on finite element analysis, domain decomposition is a key technique for its preprocessing. Generally, a domain decomposition of a mesh can be realized through partitioning of a graph which is converted from a finite element mesh. This paper discusses the method for graph partitioning and the way to actualize mesh partitioning. Relevant softwares are introduced, and the data structure and key functions of Metis and ParMetis are introduced. The writing, compiling, and testing of the mesh partitioning interface program based on these key functions are performed. The results indicate some objective law and characteristics to guide the users who use the graph partitioning algorithm and software to write PFEM program, and ideal partitioning effects can be achieved by actualizing mesh partitioning through the program. The interface program can also be used directly by the engineering researchers as a module of the PFEM software. So that it can reduce the application of the threshold of graph partitioning algorithm, improve the calculation efficiency, and promote the application of graph theory and parallel computing

Hypergraph Partitioning in the Cloud

The thesis investigates the partitioning and load balancing problem which has many applications in High Performance Computing (HPC). The application to be partitioned is described with a graph or hypergraph. The latter is of greater interest as hypergraphs, compared to graphs, have a more general structure and can be used to model more complex relationships between groups of objects such as non-symmetric dependencies. Optimal graph and hypergraph partitioning is known to be NP-Hard but good polynomial time heuristic algorithms have been proposed. In this thesis, we propose two multi-level hypergraph partitioning algorithms. The algorithms are based on rough set clustering techniques. The first algorithm, which is a serial algorithm, obtains high quality partitionings and improves the partitioning cut by up to 71\% compared to the state-of-the-art serial hypergraph partitioning algorithms. Furthermore, the capacity of serial algorithms is limited due to the rapid growth of problem sizes of distributed applications. Consequently, we also propose a parallel hypergraph partitioning algorithm. Considering the generality of the hypergraph model, designing a parallel algorithm is difficult and the available parallel hypergraph algorithms offer less scalability compared to their graph counterparts. The issue is twofold: the parallel algorithm and the complexity of the hypergraph structure. Our parallel algorithm provides a trade-off between global and local vertex clustering decisions. By employing novel techniques and approaches, our algorithm achieves better scalability than the state-of-the-art parallel hypergraph partitioner in the Zoltan tool on a set of benchmarks, especially ones with irregular structure. Furthermore, recent advances in cloud computing and the services they provide have led to a trend in moving HPC and large scale distributed applications into the cloud. Despite its advantages, some aspects of the cloud, such as limited network resources, present a challenge to running communication-intensive applications and make them non-scalable in the cloud. While hypergraph partitioning is proposed as a solution for decreasing the communication overhead within parallel distributed applications, it can also offer advantages for running these applications in the cloud. The partitioning is usually done as a pre-processing step before running the parallel application. As parallel hypergraph partitioning itself is a communication-intensive operation, running it in the cloud is hard and suffers from poor scalability. The thesis also investigates the scalability of parallel hypergraph partitioning algorithms in the cloud, the challenges they present, and proposes solutions to improve the cost/performance ratio for running the partitioning problem in the cloud. Our algorithms are implemented as a new hypergraph partitioning package within Zoltan. It is an open source Linux-based toolkit for parallel partitioning, load balancing and data-management designed at Sandia National Labs. The algorithms are known as FEHG and PFEHG algorithms

A parallel algorithm to calculate the costrank of a network

We developed analogous parallel algorithms to implement CostRank for distributed memory parallel computers using multi processors. Our intent is to make CostRank calculations for the growing number of hosts in a fast and a scalable way. In the same way we intent to secure large scale networks that require fast and reliable computing to calculate the ranking of enormous graphs with thousands of vertices (states) and millions or arcs (links). In our proposed approach we focus on a parallel CostRank computational architecture on a cluster of PCs networked via Gigabit Ethernet LAN to evaluate the performance and scalability of our implementation. In particular, a partitioning of input data, graph files, and ranking vectors with load balancing technique can improve the runtime and scalability of large-scale parallel computations. An application case study of analogous Cost Rank computation is presented. Applying parallel environment models for one-dimensional sparse matrix partitioning on a modified research page, results in a significant reduction in communication overhead and in per-iteration runtime. We provide an analytical discussion of analogous algorithms performance in terms of I/O and synchronization cost, as well as of memory usage

Computational Optimization Techniques for Graph Partitioning

Partitioning graphs into two or more subgraphs is a fundamental operation in computer science, with applications in large-scale graph analytics, distributed and parallel data processing, and fill-reducing orderings in sparse matrix algorithms. Computing balanced and minimally connected subgraphs is a common pre-processing step in these areas, and must therefore be done quickly and efficiently. Since graph partitioning is NP-hard, heuristics must be used. These heuristics must balance the need to produce high quality partitions with that of providing practical performance. Traditional methods of partitioning graphs rely heavily on combinatorics, but recent developments in continuous optimization formulations have led to the development of hybrid methods that combine the best of both approaches. This work describes numerical optimization formulations for two classes of graph partitioning problems, edge cuts and vertex separators. Optimization-based formulations for each of these problems are described, and hybrid algorithms combining these optimization-based approaches with traditional combinatoric methods are presented. Efficient implementations and computational results for these algorithms are presented in a C++ graph partitioning library competitive with the state of the art. Additionally, an optimization-based approach to hypergraph partitioning is proposed

Hypergraph-based data partitioning

Ankara : The Department of Computer Engineering and the Graduate School of Engineering and Science of Bilkent University, 2013.Thesis (Ph.D.) -- Bilkent University, 2013Includes bibliographical references leaves 96-103.A hypergraph is a general version of graph where the edges may connect any number of vertices. By this flexibility, hypergraphs has a larger modeling power that may allow accurate formulaion of many problems of combinatorial scientific computing. This thesis discusses the use of hypergraph-based approaches to solve problems that require data partitioning. The thesis is composed of three parts. In the first part, we show how to implement hypergraph partitioning efficiently using recursive graph bipartitioning. The remaining two parts show how to formulate two important data partitioning problems in parallel computing as hypergraph partitioning. The first problem is global inverted index partitioning for parallel query processing and the second one is row-columnwise sparse matrix partitioning for parallel matrix vector multiplication, where both multiplication and sparse matrix partitioning schemes has novelty. In this thesis, we show that hypergraph models achieve partitions with better quality.Kayaaslan, EnverPh.D

FGPGA: An Efficient Genetic Approach for Producing Feasible Graph Partitions

Graph partitioning, a well studied problem of parallel computing has many applications in diversified fields such as distributed computing, social network analysis, data mining and many other domains. In this paper, we introduce FGPGA, an efficient genetic approach for producing feasible graph partitions. Our method takes into account the heterogeneity and capacity constraints of the partitions to ensure balanced partitioning. Such approach has various applications in mobile cloud computing that include feasible deployment of software applications on the more resourceful infrastructure in the cloud instead of mobile hand set. Our proposed approach is light weight and hence suitable for use in cloud architecture. We ensure feasibility of the partitions generated by not allowing over-sized partitions to be generated during the initialization and search. Our proposed method tested on standard benchmark datasets significantly outperforms the state-of-the-art methods in terms of quality of partitions and feasibility of the solutions.Comment: Accepted in the 1st International Conference on Networking Systems and Security 2015 (NSysS 2015