Routing on the Channel Dependency Graph:: A New Approach to Deadlock-Free, Destination-Based, High-Performance Routing for Lossless Interconnection Networks

In the pursuit for ever-increasing compute power, and with Moore's law slowly coming to an end, high-performance computing started to scale-out to larger systems. Alongside the increasing system size, the interconnection network is growing to accommodate and connect tens of thousands of compute nodes. These networks have a large influence on total cost, application performance, energy consumption, and overall system efficiency of the supercomputer. Unfortunately, state-of-the-art routing algorithms, which define the packet paths through the network, do not utilize this important resource efficiently. Topology-aware routing algorithms become increasingly inapplicable, due to irregular topologies, which either are irregular by design, or most often a result of hardware failures. Exchanging faulty network components potentially requires whole system downtime further increasing the cost of the failure. This management approach becomes more and more impractical due to the scale of today's networks and the accompanying steady decrease of the mean time between failures. Alternative methods of operating and maintaining these high-performance interconnects, both in terms of hardware- and software-management, are necessary to mitigate negative effects experienced by scientific applications executed on the supercomputer. However, existing topology-agnostic routing algorithms either suffer from poor load balancing or are not bounded in the number of virtual channels needed to resolve deadlocks in the routing tables. Using the fail-in-place strategy, a well-established method for storage systems to repair only critical component failures, is a feasible solution for current and future HPC interconnects as well as other large-scale installations such as data center networks. Although, an appropriate combination of topology and routing algorithm is required to minimize the throughput degradation for the entire system. This thesis contributes a network simulation toolchain to facilitate the process of finding a suitable combination, either during system design or while it is in operation. On top of this foundation, a key contribution is a novel scheduling-aware routing, which reduces fault-induced throughput degradation while improving overall network utilization. The scheduling-aware routing performs frequent property preserving routing updates to optimize the path balancing for simultaneously running batch jobs. The increased deployment of lossless interconnection networks, in conjunction with fail-in-place modes of operation and topology-agnostic, scheduling-aware routing algorithms, necessitates new solutions to solve the routing-deadlock problem. Therefore, this thesis further advances the state-of-the-art by introducing a novel concept of routing on the channel dependency graph, which allows the design of an universally applicable destination-based routing capable of optimizing the path balancing without exceeding a given number of virtual channels, which are a common hardware limitation. This disruptive innovation enables implicit deadlock-avoidance during path calculation, instead of solving both problems separately as all previous solutions

Design and Evaluation of Low-Latency Communication Middleware on High Performance Computing Systems

[Resumen]El interés en Java para computación paralela está motivado por sus interesantes características, tales como su soporte multithread, portabilidad, facilidad de aprendizaje,alta productividad y el aumento significativo en su rendimiento omputacional. No obstante, las aplicaciones paralelas en Java carecen generalmente de mecanismos de comunicación eficientes, los cuales utilizan a menudo protocolos basados en sockets incapaces de obtener el máximo provecho de las redes de baja latencia, obstaculizando la adopción de Java en computación de altas prestaciones (High Per- formance Computing, HPC). Esta Tesis Doctoral presenta el diseño, implementación y evaluación de soluciones de comunicación en Java que superan esta limitación. En consecuencia, se desarrollaron múltiples dispositivos de comunicación a bajo nivel para paso de mensajes en Java (Message-Passing in Java, MPJ) que aprovechan al máximo el hardware de red subyacente mediante operaciones de acceso directo a memoria remota que proporcionan comunicaciones de baja latencia. También se incluye una biblioteca de paso de mensajes en Java totalmente funcional, FastMPJ, en la cual se integraron los dispositivos de comunicación. La evaluación experimental ha mostrado que las primitivas de comunicación de FastMPJ son competitivas en comparación con bibliotecas nativas, aumentando significativamente la escalabilidad de aplicaciones MPJ. Por otro lado, esta Tesis analiza el potencial de la computación en la nube (cloud computing) para HPC, donde el modelo de distribución de infraestructura como servicio (Infrastructure as a Service, IaaS) emerge como una alternativa viable a los sistemas HPC tradicionales. La evaluación del rendimiento de recursos cloud específicos para HPC del proveedor líder, Amazon EC2, ha puesto de manifiesto el impacto significativo que la virtualización impone en la red, impidiendo mover las aplicaciones intensivas en comunicaciones a la nube. La clave reside en un soporte de virtualización apropiado, como el acceso directo al hardware de red, junto con las directrices para la optimización del rendimiento sugeridas en esta Tesis.[Resumo]O interese en Java para computación paralela está motivado polas súas interesantes características, tales como o seu apoio multithread, portabilidade, facilidade de aprendizaxe, alta produtividade e o aumento signi cativo no seu rendemento computacional. No entanto, as aplicacións paralelas en Java carecen xeralmente de mecanismos de comunicación e cientes, os cales adoitan usar protocolos baseados en sockets que son incapaces de obter o máximo proveito das redes de baixa latencia, obstaculizando a adopción de Java na computación de altas prestacións (High Performance Computing, HPC). Esta Tese de Doutoramento presenta o deseño, implementaci ón e avaliación de solucións de comunicación en Java que superan esta limitación. En consecuencia, desenvolvéronse múltiples dispositivos de comunicación a baixo nivel para paso de mensaxes en Java (Message-Passing in Java, MPJ) que aproveitan ao máaximo o hardware de rede subxacente mediante operacións de acceso directo a memoria remota que proporcionan comunicacións de baixa latencia. Tamén se inclúe unha biblioteca de paso de mensaxes en Java totalmente funcional, FastMPJ, na cal foron integrados os dispositivos de comunicación. A avaliación experimental amosou que as primitivas de comunicación de FastMPJ son competitivas en comparación con bibliotecas nativas, aumentando signi cativamente a escalabilidade de aplicacións MPJ. Por outra banda, esta Tese analiza o potencial da computación na nube (cloud computing) para HPC, onde o modelo de distribución de infraestrutura como servizo (Infrastructure as a Service, IaaS) xorde como unha alternativa viable aos sistemas HPC tradicionais. A ampla avaliación do rendemento de recursos cloud específi cos para HPC do proveedor líder, Amazon EC2, puxo de manifesto o impacto signi ficativo que a virtualización impón na rede, impedindo mover as aplicacións intensivas en comunicacións á nube. A clave atópase no soporte de virtualización apropiado, como o acceso directo ao hardware de rede, xunto coas directrices para a optimización do rendemento suxeridas nesta Tese.[Abstract]The use of Java for parallel computing is becoming more promising owing to its appealing features, particularly its multithreading support, portability, easy-tolearn properties, high programming productivity and the noticeable improvement in its computational performance. However, parallel Java applications generally su er from inefficient communication middleware, most of which use socket-based protocols that are unable to take full advantage of high-speed networks, hindering the adoption of Java in the High Performance Computing (HPC) area. This PhD Thesis presents the design, development and evaluation of scalable Java communication solutions that overcome these constraints. Hence, we have implemented several lowlevel message-passing devices that fully exploit the underlying network hardware while taking advantage of Remote Direct Memory Access (RDMA) operations to provide low-latency communications. Moreover, we have developed a productionquality Java message-passing middleware, FastMPJ, in which the devices have been integrated seamlessly, thus allowing the productive development of Message-Passing in Java (MPJ) applications. The performance evaluation has shown that FastMPJ communication primitives are competitive with native message-passing libraries, improving signi cantly the scalability of MPJ applications. Furthermore, this Thesis has analyzed the potential of cloud computing towards spreading the outreach of HPC, where Infrastructure as a Service (IaaS) o erings have emerged as a feasible alternative to traditional HPC systems. Several cloud resources from the leading IaaS provider, Amazon EC2, which speci cally target HPC workloads, have been thoroughly assessed. The experimental results have shown the signi cant impact that virtualized environments still have on network performance, which hampers porting communication-intensive codes to the cloud. The key is the availability of the proper virtualization support, such as the direct access to the network hardware, along with the guidelines for performance optimization suggested in this Thesis

Future Energy Efficient Data Centers With Disaggregated Servers

The popularity of the Internet and the demand for 24/7 services uptime is driving system performance and reliability requirements to levels that today's data centers can no longer support. This paper examines the traditional monolithic conventional server (CS) design and compares it to a new design paradigm: the disaggregated server (DS) data center design. The DS design arranges data centers resources in physical pools, such as processing, memory, and IO module pools, rather than packing each subset of such resources into a single server box. In this paper, we study energy efficient resource provisioning and virtual machine (VM) allocation in DS-based data centers compared to CS-based data centers. First, we present our new design for the photonic DS-based data center architecture, supplemented with a complete description of the architectural components. Second, we develop a mixed integer linear programming (MILP) model to optimize VM allocation for the DS-based data center, including the data center communication fabric power consumption. Our results indicate that, in DS data centers, the optimum allocation of pooled resources and their communication power yields up to 42% average savings in total power consumption when compared with the CS approach. Due to the MILP high computational complexity, we developed an energy efficient resource provisioning heuristic for DS with communication fabric (EERP-DSCF), based on the MILP model insights, with comparable power efficiency to the MILP model. With EERP-DSCF, we can extend the number of served VMs, where the MILP model scalability for a large number of VMs is challenging. Furthermore, we assess the energy efficiency of the DS design under stringent conditions by increasing the CPU to memory traffic and by including high noncommunication power consumption to determine the conditions at which the DS and CS designs become comparable in power consumption. Finally, we present a complete analysis of the communication patterns in our new DS design and some recommendations for design and implementation challenges

Characterization and optimization of network traffic in cortical simulation

Considering the great variety of obstacles the Exascale systems have to face in the next future, a deeper attention will be given in this thesis to the interconnect and the power consumption. The data movement challenge involves the whole hierarchical organization of components in HPC systems — i.e. registers, cache, memory, disks. Running scientific applications needs to provide the most effective methods of data transport among the levels of hierarchy. On current petaflop systems, memory access at all the levels is the limiting factor in almost all applications. This drives the requirement for an interconnect achieving adequate rates of data transfer, or throughput, and reducing time delays, or latency, between the levels. Power consumption is identified as the largest hardware research challenge. The annual power cost to operate the system would be above 2.5 B$ per year for an Exascale system using current technology. The research for alternative power-efficient computing device is mandatory for the procurement of the future HPC systems. In this thesis, a preliminary approach will be offered to the critical process of co-design. Co-desing is defined as the simultaneos design of both hardware and software, to implement a desired function. This process both integrates all components of the Exascale initiative and illuminates the trade-offs that must be made within this complex undertaking

FatPaths: Routing in Supercomputers and Data Centers when Shortest Paths Fall Short

We introduce FatPaths: a simple, generic, and robust routing architecture that enables state-of-the-art low-diameter topologies such as Slim Fly to achieve unprecedented performance. FatPaths targets Ethernet stacks in both HPC supercomputers as well as cloud data centers and clusters. FatPaths exposes and exploits the rich ("fat") diversity of both minimal and non-minimal paths for high-performance multi-pathing. Moreover, FatPaths uses a redesigned "purified" transport layer that removes virtually all TCP performance issues (e.g., the slow start), and incorporates flowlet switching, a technique used to prevent packet reordering in TCP networks, to enable very simple and effective load balancing. Our design enables recent low-diameter topologies to outperform powerful Clos designs, achieving 15% higher net throughput at 2x lower latency for comparable cost. FatPaths will significantly accelerate Ethernet clusters that form more than 50% of the Top500 list and it may become a standard routing scheme for modern topologies

Power-Aware Resilience for Exascale Computing

To enable future scientific breakthroughs and discoveries, the next generation of scientific applications will require exascale computing performance to support the execution of predictive models and analysis of massive quantities of data, with significantly higher resolution and fidelity than what is possible within existing computing infrastructure. Delivering exascale performance will require massive parallelism, which could result in a computing system with over a million sockets, each supporting many cores. Resulting in a system with millions of components, including memory modules, communication networks, and storage devices. This increase in number of components significantly increases the propensity of exascale computing systems to faults, while driving power consumption and operating costs to unforeseen heights. To achieve exascale performance two challenges must be addressed: resilience to failures and adherence to power budget constraints. These two objectives conflict insofar as performance is concerned, as achieving high performance may push system components past their thermal limit and increase the likelihood of failure. With current systems, the dominant resilience technique is checkpoint/restart. It is believed, however, that this technique alone will not scale to the level necessary to support future systems. Therefore, alternative methods have been suggested to augment checkpoint/restart -- for example process replication. In this thesis, we present a new fault tolerance model called shadow replication that addresses resilience and power simultaneously. Shadow replication associates a shadow process with each main process, similar to traditional replication, however, the shadow process executes at a reduced speed. Shadow replication reduces energy consumption and produces solutions faster than checkpoint/restart and other replication methods in limited power environments. Shadow replication reduces energy consumption up to 25 depending upon the application type, system parameters, and failure rates. The major contribution of this thesis is the development of shadow replication, a power-aware fault tolerant computational model. The second contribution is an execution model applying shadow replication to future high performance exascale-class systems. Next, is a framework to analyze and simulate the power and energy consumption of fault tolerance methods in high performance computing systems. Lastly, to prove the viability of shadow replication an implementation is presented for the Message Passing Interface