Comparison and tuning of MPI implementations in a grid context

Today, clusters are often interconnected by long distance networks within grids to offer a huge number of available ressources to a range of users. MPI, the standard communication library used to write parallel applications, has been implemented for clusters. Two main features of grids: long distance networks and technological heterogeneity, raise the question of MPI efficiency in grids. This report presents an evaluation of four recent MPI implementations (MPICH2, MPICH-Madeleine, OpenMPI and GridMPI) in the french research grid: Grid'5000. The comparison is based on the execution of pingpong, NAS Parallel Benchmarks and a real application in geophysics. We show that this implementations present performance differences. Executing MPI applications on the grid can be beneficial if the parameters are well tuned. The paper details the tuning required on each implementation to get the best performances

Virtual time-aware virtual machine systems

Discrete dynamic system models that track, maintain, utilize, and evolve virtual time are referred to as virtual time systems (VTS). The realization of VTS using virtual machine (VM) technology offers several benefits including fidelity, scalability, interoperability, fault tolerance and load balancing. The usage of VTS with VMs appears in two ways: (a) VMs within VTS, and (b) VTS over VMs. The former is prevalent in high-fidelity cyber infrastructure simulations and cyber-physical system simulations, wherein VMs form a crucial component of VTS. The latter appears in the popular Cloud computing services, where VMs are offered as computing commodities and the VTS utilizes VMs as parallel execution platforms. Prior to our work presented here, the simulation community using VM within VTS (specifically, cyber infrastructure simulations) had little awareness of the existence of a fundamental virtual time-ordering problem. The correctness problem was largely unnoticed and unaddressed because of the unrecognized effects of fair-share multiplexing of VMs to realize virtual time evolution of VMs within VTS. The dissertation research reported here demonstrated the latent incorrectness of existing methods, defined key correctness benchmarks, quantitatively measured the incorrectness, proposed and implemented novel algorithms to overcome incorrectness, and optimized the solutions to execute without a performance penalty. In fact our novel, correctness-enforcing design yields better runtime performance than the traditional (incorrect) methods. Similarly, the VTS execution over VM platforms such as Cloud computing services incurs large performance degradation, which was not known until our research uncovered the fundamental mismatch between the scheduling needs of VTS execution and those of traditional parallel workloads. Consequently, we designed a novel VTS-aware hypervisor scheduler and showed significant performance gains in VTS execution over VM platforms. Prior to our work, the performance concern of VTS over VM was largely unaddressed due to the absence of an understanding of execution policy mismatch between VMs and VTS applications. VTS follows virtual-time order execution whereas the conventional VM execution follows fair-share policy. Our research quantitatively uncovered the exact cause of poor performance of VTS in VM platforms. Moreover, we proposed and implemented a novel virtual time-aware execution methodology that relieves the degradation and provides over an order of magnitude faster execution than the traditional virtual time-unaware execution.Ph.D

Methods and design issues for next generation network-aware applications

Networks are becoming an essential component of modern cyberinfrastructure and this work describes methods of designing distributed applications for high-speed networks to improve application scalability, performance and capabilities. As the amount of data generated by scientific applications continues to grow, to be able to handle and process it, applications should be designed to use parallel, distributed resources and high-speed networks. For scalable application design developers should move away from the current component-based approach and implement instead an integrated, non-layered architecture where applications can use specialized low-level interfaces. The main focus of this research is on interactive, collaborative visualization of large datasets. This work describes how a visualization application can be improved through using distributed resources and high-speed network links to interactively visualize tens of gigabytes of data and handle terabyte datasets while maintaining high quality. The application supports interactive frame rates, high resolution, collaborative visualization and sustains remote I/O bandwidths of several Gbps (up to 30 times faster than local I/O). Motivated by the distributed visualization application, this work also researches remote data access systems. Because wide-area networks may have a high latency, the remote I/O system uses an architecture that effectively hides latency. Five remote data access architectures are analyzed and the results show that an architecture that combines bulk and pipeline processing is the best solution for high-throughput remote data access. The resulting system, also supporting high-speed transport protocols and configurable remote operations, is up to 400 times faster than a comparable existing remote data access system. Transport protocols are compared to understand which protocol can best utilize high-speed network connections, concluding that a rate-based protocol is the best solution, being 8 times faster than standard TCP. An HD-based remote teaching application experiment is conducted, illustrating the potential of network-aware applications in a production environment. Future research areas are presented, with emphasis on network-aware optimization, execution and deployment scenarios

Doctor of Philosophy

dissertationRay tracing presents an efficient rendering algorithm for scientific visualization using common visualization tools and scales with increasingly large geometry counts while allowing for accurate physically-based visualization and analysis, which enables enhanced rendering and new visualization techniques. Interactivity is of great importance for data exploration and analysis in order to gain insight into large-scale data. Increasingly large data sizes are pushing the limits of brute-force rasterization algorithms present in the most widely-used visualization software. Interactive ray tracing presents an alternative rendering solution which scales well on multicore shared memory machines and multinode distributed systems while scaling with increasing geometry counts through logarithmic acceleration structure traversals. Ray tracing within existing tools also provides enhanced rendering options over current implementations, giving users additional insight from better depth cues while also enabling publication-quality rendering and new models of visualization such as replicating photographic visualization techniques

Efficient Passive Clustering and Gateways selection MANETs

Passive clustering does not employ control packets to collect topological information in ad hoc networks. In our proposal, we avoid making frequent changes in cluster architecture due to repeated election and re-election of cluster heads and gateways. Our primary objective has been to make Passive Clustering more practical by employing optimal number of gateways and reduce the number of rebroadcast packets

NASA Tech Briefs, April 2000

Topics covered include: Imaging/Video/Display Technology; Electronic Components and Circuits; Electronic Systems; Physical Sciences; Materials; Computer Programs; Mechanics; Bio-Medical; Test and Measurement; Mathematics and Information Sciences; Books and Reports

Improving Large-Scale Network Traffic Simulation with Multi-Resolution Models

Simulating a large-scale network like the Internet is a challenging undertaking because of the sheer volume of its traffic. Packet-oriented representation provides high-fidelity details but is computationally expensive; fluid-oriented representation offers high simulation efficiency at the price of losing packet-level details. Multi-resolution modeling techniques exploit the advantages of both representations by integrating them in the same simulation framework. This dissertation presents solutions to the problems regarding the efficiency, accuracy, and scalability of the traffic simulation models in this framework. The ``ripple effect\u27\u27 is a well-known problem inherent in event-driven fluid-oriented traffic simulation, causing explosion of fluid rate changes. Integrating multi-resolution traffic representations requires estimating arrival rates of packet-oriented traffic, calculating the queueing delay upon a packet arrival, and computing packet loss rate under buffer overflow. Real time simulation of a large or ultra-large network demands efficient background traffic simulation. The dissertation includes a rate smoothing technique that provably mitigates the ``ripple effect\u27\u27, an accurate and efficient approach that integrates traffic models at multiple abstraction levels, a sequential algorithm that achieves real time simulation of the coarse-grained traffic in a network with 3 tier-1 ISP (Internet Service Provider) backbones using an ordinary PC, and a highly scalable parallel algorithm that simulates network traffic at coarse time scales

Interactive CFD simulations

This project is about the development of an implementable Interactive Computer Fluid Dynamics methodology -- The range of this work begins with an overview of the current status of computational fluid dynamics simulation software and methodologies, continues with an introduction to what interactive and interactivity mean, develops an all original interactive CFD methodology to follow for the solution of fluid scenarios and finally, the description of the implementation of an interactive solver for CFD using the earlier developed methodology -- The project was developed entirely at the EAFIT University’s Applied Mechanics Laboratory in Medellin and is part of a collaboration effort in companionship with the University of Aberta in Canada and Los Andes University in Bogota, Colombi