A hierarchical model to manage hardware topology in MPI applications

International audienceThe MPI standard is a major contribution in the landscape of parallel programming. Since its inception in the mid 90's it has ensured portability and performance for parallel applications on a wide spectrum of machines and architectures. With the advent of multicore machines, understanding and taking into account the underlying physical topology and memory hierarchy have become of paramount importance. The MPI standard in its current state, however, and despite recent evolutions is still unable to offer mechanisms to achieve this. In this paper, we detail several additions to the standard that give the user tools to address the hardware topology and data locality issues while improving application performance

Hardware topology management in MPI applications through hierarchical communicators

International audienceThe MPI standard is a major contribution in the landscape of parallel programming. Since its inception in the mid 90s it has ensured portability and performance for parallel applications on a wide spectrum of machines and architectures. With the advent of multicore machines, understanding and taking into account the underlying physical topology and memory hierarchy have become of paramount importance. On the other hand, providing abstract mechanisms to manipulate the hardware topology is also fundamental. The MPI standard in its current state, however, and despite recent evolutions is still unable to offer mechanisms to achieve this. In this paper, we detail several additions to the standard for building new MPI communicators corresponding to hardware hierarchy levels. It provides the user with tools to address hardware topology and locality issues while improving application performance

Un modèle hièrarchique pour la gestion de la topologie dans les applications MPI

The MPI standard is a major contribution in the landscape of parallel programming. Since its inception in the mid 90's it has ensured portability and performance for parallel applications on a wide spectrum of machines and architectures. With the advent of multicore machines, understanding and taking into account the underlying physical topology and memory hierarchy as become of paramount importance. The MPI standard in its current state, however, and despite recent evolutions is still unable to offer mechanisms to achieve this. In this paper, we detail several additions to the standard that give the user tools to address the hardware topology and data locality issues while improving application performance.Le standard MPI est une contribution importante dans le domaine de la programmation parallèle. Il est destiné à l'écriture d'applications parallèles pour un large éventail d'architectures parallèles. L'arrivée des machines multicœur implique une compréhension plus fine de la topologie matérielle sous-jacente, notamment en ce qui concerne les hiérarchies mémoire et réseau. Or, dans son statut actuel, MPI ne permet pas de prendre ces aspects en compte. Nous détaillons dans cet article des modifications à MPI pour permettre la prise en compte de ces aspects afind'améliorer les performances applicatives

Adaptive Prefetching and Cache Partitioning for Multicore Processors

El acceso a la memoria principal en los procesadores actuales supone un importante cuello de botella para las prestaciones, dado que los diferentes núcleos compiten por el limitado ancho de banda de memoria, agravando la brecha entre las prestaciones del procesador y las de la memoria principal. Distintas técnicas atacan este problema, siendo las más relevantes el uso de jerarquías de caché multinivel y la prebúsqueda. Las cachés jerárquicas aprovechan la localidad temporal y espacial que en general presentan los programas en el acceso a los datos, para mitigar las enormes latencias de acceso a memoria principal. Para limitar el número de accesos a la memoria DRAM, fuera del chip, los procesadores actuales cuentan con grandes cachés de último nivel (LLC). Para mejorar su utilización y reducir costes, estas cachés suelen compartirse entre todos los núcleos del procesador. Este enfoque mejora significativamente el rendimiento de la mayoría de las aplicaciones en comparación con el uso de cachés privados más pequeños. Compartir la caché, sin embargo, presenta una problema importante: la interferencia entre aplicaciones. La prebúsqueda, por otro lado, trae bloques de datos a las cachés antes de que el procesador los solicite, ocultando la latencia de memoria principal. Desafortunadamente, dado que la prebúsqueda es una técnica especulativa, si no tiene éxito puede contaminar la caché con bloques que no se usarán. Además, las prebúsquedas interfieren con los accesos a memoria normales, tanto los del núcleo que emite las prebúsquedas como los de los demás. Esta tesis se centra en reducir la interferencia entre aplicaciones, tanto en las caché compartidas como en el acceso a la memoria principal. Para reducir la interferencia entre aplicaciones en el acceso a la memoria principal, el mecanismo propuesto en esta disertación regula la agresividad de cada prebuscador, activando o desactivando selectivamente algunos de ellos, dependiendo de su rendimiento individual y de los requisitos de ancho de banda de memoria principal de los otros núcleos. Con respecto a la interferencia en cachés compartidos, esta tesis propone dos técnicas de particionado para la LLC, las cuales otorgan más espacio de caché a las aplicaciones que progresan más lentamente debido a la interferencia entre aplicaciones. La primera propuesta de particionado de caché requiere hardware específico no disponible en procesadores comerciales, por lo que se ha evaluado utilizando un entorno de simulación. La segunda propuesta de particionado de caché presenta una familia de políticas que superan las limitaciones en el número de particiones y en el número de vías de caché disponibles mediante la agrupación de aplicaciones en clústeres y la superposición de particiones de caché, por lo que varias aplicaciones comparten las mismas vías. Dado que se ha implementado utilizando los mecanismos para el particionado de la LLC que presentan algunos procesadores Intel modernos, esta propuesta ha sido evaluada en una máquina real. Los resultados experimentales muestran que el mecanismo de prebúsqueda selectiva propuesto en esta tesis reduce el número de solicitudes de memoria principal en un 20%, cosa que se traduce en mejoras en la equidad del sistema, el rendimiento y el consumo de energía. Por otro lado, con respecto a los esquemas de partición propuestos, en comparación con un sistema sin particiones, ambas propuestas reducen la iniquidad del sistema en un promedio de más del 25%, independientemente de la cantidad de aplicaciones en ejecución, y esta reducción en la injusticia no afecta negativamente al rendimiento.Accessing main memory represents a major performance bottleneck in current processors, since the different cores compete among them for the limited offchip bandwidth, aggravating even more the so called memory wall. Several techniques have been applied to deal with the core-memory performance gap, with the most preeminent ones being prefetching and hierarchical caching. Hierarchical caches leverage the temporal and spacial locality of the accessed data, mitigating the huge main memory access latencies. To limit the number of accesses to the off-chip DRAM memory, current processors feature large Last Level Caches. These caches are shared between all the cores to improve the utilization of the cache space and reduce cost. This approach significantly improves the performance of most applications compared to using smaller private caches. Cache sharing, however, presents an important shortcoming: the interference between applications. Prefetching, on the other hand, brings data blocks to the caches before they are requested, hiding the main memory latency. Unfortunately, since prefetching is a speculative technique, inaccurate prefetches may pollute the cache with blocks that will not be used. In addition, the prefetches interfere with the regular memory requests, both the ones from the application running on the core that issued the prefetches and the others. This thesis focuses on reducing the inter-application interference, both in the shared cache and in the access to the main memory. To reduce the interapplication interference in the access to main memory, the proposed approach regulates the aggressiveness of each core prefetcher, and selectively activates or deactivates some of them, depending on their individual performance and the main memory bandwidth requirements of the other cores. With respect to interference in shared caches, this thesis proposes two LLC partitioning techniques that give more cache space to the applications that have their progress diminished due inter-application interferences. The first cache partitioning proposal requires dedicated hardware not available in commercial processors, so it has been evaluated using a simulation framework. The second proposal dealing with cache partitioning presents a family of partitioning policies that overcome the limitations in the number of partitions and the number of available ways by grouping applications and overlapping cache partitions, so multiple applications share the same ways. Since it has been implemented using the cache partitioning features of modern Intel processors it has been evaluated in a real machine. Experimental results show that the proposed selective prefetching mechanism reduces the number of main memory requests by 20%, which translates to improvements in unfairness, performance, and energy consumption. On the other hand, regarding the proposed partitioning schemes, compared to a system with no partitioning, both reduce unfairness more than 25% on average, regardless of the number of applications running in the multicore, and this reduction in unfairness does not negatively affect the performance.L'accés a la memòria principal en els processadors actuals suposa un important coll d'ampolla per a les prestacions, ja que els diferents nuclis competeixen pel limitat ample de banda de memòria, agreujant la bretxa entre les prestacions del processador i les de la memòria principal. Diferents tècniques ataquen aquest problema, sent les més rellevants l'ús de jerarquies de memòria cau multinivell i la prebusca. Les memòries cau jeràrquiques aprofiten la localitat temporal i espacial que en general presenten els programes en l'accés a les dades per mitigar les enormes latències d'accés a memòria principal. Per limitar el nombre d'accessos a la memòria DRAM, fora del xip, els processadors actuals compten amb grans caus d'últim nivell (LLC). Per millorar la seva utilització i reduir costos, aquestes memòries cau solen compartir-se entre tots els nuclis del processador. Aquest enfocament millora significativament el rendiment de la majoria de les aplicacions en comparació amb l'ús de caus privades més menudes. Compartir la memòria cau, no obstant, presenta una problema important: la interferencia entre aplicacions. La prebusca, per altra banda, porta blocs de dades a les memòries cau abans que el processador els sol·licite, ocultant la latència de memòria principal. Desafortunadament, donat que la prebusca és una técnica especulativa, si no té èxit pot contaminar la memòria cau amb blocs que no fan falta. A més, les prebusques interfereixen amb els accessos normals a memòria, tant els del nucli que emet les prebusques com els dels altres. Aquesta tesi es centra en reduir la interferència entre aplicacions, tant en les cau compartides com en l'accés a la memòria principal. Per reduir la interferència entre aplicacions en l'accés a la memòria principal, el mecanismo proposat en aquesta dissertació regula l'agressivitat de cada prebuscador, activant o desactivant selectivament alguns d'ells, en funció del seu rendiment individual i dels requisits d'ample de banda de memòria principal dels altres nuclis. Pel que fa a la interferència en caus compartides, aquesta tesi proposa dues tècniques de particionat per a la LLC, les quals atorguen més espai de memòria cau a les aplicacions que progressen més lentament a causa de la interferència entre aplicacions. La primera proposta per al particionat de memòria cau requereix hardware específic no disponible en processadors comercials, per la qual cosa s'ha avaluat utilitzant un entorn de simulació. La segona proposta de particionat per a memòries cau presenta una família de polítiques que superen les limitacions en el nombre de particions i en el nombre de vies de memòria cau disponibles mitjan¿ cant l'agrupació d'aplicacions en clústers i la superposició de particions de memòria cau, de manera que diverses aplicacions comparteixen les mateixes vies. Atès que s'ha implementat utilitzant els mecanismes per al particionat de la LLC que ofereixen alguns processadors Intel moderns, aquesta proposta s'ha avaluat en una màquina real. Els resultats experimentals mostren que el mecanisme de prebusca selectiva proposat en aquesta tesi redueix el nombre de sol·licituds a la memòria principal en un 20%, cosa que es tradueix en millores en l'equitat del sistema, el rendiment i el consum d'energia. Per altra banda, pel que fa als esquemes de particiónat proposats, en comparació amb un sistema sense particions, ambdues propostes redueixen la iniquitat del sistema en més d'un 25% de mitjana, independentment de la quantitat d'aplicacions en execució, i aquesta reducció en la iniquitat no afecta negativament el rendiment.Selfa Oliver, V. (2018). Adaptive Prefetching and Cache Partitioning for Multicore Processors [Tesis doctoral no publicada]. Universitat Politècnica de València. https://doi.org/10.4995/Thesis/10251/112423TESI

Acceleration of Computational Geometry Algorithms for High Performance Computing Based Geo-Spatial Big Data Analysis

Geo-Spatial computing and data analysis is the branch of computer science that deals with real world location-based data. Computational geometry algorithms are algorithms that process geometry/shapes and is one of the pillars of geo-spatial computing. Real world map and location-based data can be huge in size and the data structures used to process them extremely big leading to huge computational costs. Furthermore, Geo-Spatial datasets are growing on all V’s (Volume, Variety, Value, etc.) and are becoming larger and more complex to process in-turn demanding more computational resources. High Performance Computing is a way to breakdown the problem in ways that it can run in parallel on big computers with massive processing power and hence reduce the computing time delivering the same results but much faster.This dissertation explores different techniques to accelerate the processing of computational geometry algorithms and geo-spatial computing like using Many-core Graphics Processing Units (GPU), Multi-core Central Processing Units (CPU), Multi-node setup with Message Passing Interface (MPI), Cache optimizations, Memory and Communication optimizations, load balancing, Algorithmic Modifications, Directive based parallelization with OpenMP or OpenACC and Vectorization with compiler intrinsic (AVX). This dissertation has applied at least one of the mentioned techniques to the following problems. Novel method to parallelize plane sweep based geometric intersection for GPU with directives is presented. Parallelization of plane sweep based Voronoi construction, parallelization of Segment tree construction, Segment tree queries and Segment tree-based operations has been presented. Spatial autocorrelation, computation of getis-ord hotspots are also presented. Acceleration performance and speedup results are presented in each corresponding chapter

Resource Management In Cloud And Big Data Systems

Cloud computing is a paradigm shift in computing, where services are offered and acquired on demand in a cost-effective way. These services are often virtualized, and they can handle the computing needs of big data analytics. The ever-growing demand for cloud services arises in many areas including healthcare, transportation, energy systems, and manufacturing. However, cloud resources such as computing power, storage, energy, dollars for infrastructure, and dollars for operations, are limited. Effective use of the existing resources raises several fundamental challenges that place the cloud resource management at the heart of the cloud providers\u27 decision-making process. One of these challenges faced by the cloud providers is to provision, allocate, and price the resources such that their profit is maximized and the resources are utilized efficiently. In addition, executing large-scale applications in clouds may require resources from several cloud providers. Another challenge when processing data intensive applications is minimizing their energy costs. Electricity used in US data centers in 2010 accounted for about 2% of total electricity used nationwide. In addition, the energy consumed by the data centers is growing at over 15% annually, and the energy costs make up about 42% of the data centers\u27 operating costs. Therefore, it is critical for the data centers to minimize their energy consumption when offering services to customers. In this Ph.D. dissertation, we address these challenges by designing, developing, and analyzing mechanisms for resource management in cloud computing systems and data centers. The goal is to allocate resources efficiently while optimizing a global performance objective of the system (e.g., maximizing revenue, maximizing social welfare, or minimizing energy). We improve the state-of-the-art in both methodologies and applications. As for methodologies, we introduce novel resource management mechanisms based on mechanism design, approximation algorithms, cooperative game theory, and hedonic games. These mechanisms can be applied in cloud virtual machine (VM) allocation and pricing, cloud federation formation, and energy-efficient computing. In this dissertation, we outline our contributions and possible directions for future research in this field

Resource Management In Cloud And Big Data Systems

Cloud computing is a paradigm shift in computing, where services are offered and acquired on demand in a cost-effective way. These services are often virtualized, and they can handle the computing needs of big data analytics. The ever-growing demand for cloud services arises in many areas including healthcare, transportation, energy systems, and manufacturing. However, cloud resources such as computing power, storage, energy, dollars for infrastructure, and dollars for operations, are limited. Effective use of the existing resources raises several fundamental challenges that place the cloud resource management at the heart of the cloud providers\u27 decision-making process. One of these challenges faced by the cloud providers is to provision, allocate, and price the resources such that their profit is maximized and the resources are utilized efficiently. In addition, executing large-scale applications in clouds may require resources from several cloud providers. Another challenge when processing data intensive applications is minimizing their energy costs. Electricity used in US data centers in 2010 accounted for about 2% of total electricity used nationwide. In addition, the energy consumed by the data centers is growing at over 15% annually, and the energy costs make up about 42% of the data centers\u27 operating costs. Therefore, it is critical for the data centers to minimize their energy consumption when offering services to customers. In this Ph.D. dissertation, we address these challenges by designing, developing, and analyzing mechanisms for resource management in cloud computing systems and data centers. The goal is to allocate resources efficiently while optimizing a global performance objective of the system (e.g., maximizing revenue, maximizing social welfare, or minimizing energy). We improve the state-of-the-art in both methodologies and applications. As for methodologies, we introduce novel resource management mechanisms based on mechanism design, approximation algorithms, cooperative game theory, and hedonic games. These mechanisms can be applied in cloud virtual machine (VM) allocation and pricing, cloud federation formation, and energy-efficient computing. In this dissertation, we outline our contributions and possible directions for future research in this field

Automatic Generation of Models of Microarchitectures

Detailed microarchitectural models are necessary to predict, explain, or optimize the performance of software running on modern microprocessors. Building such models often requires a significant manual effort, as the documentation provided by hardware manufacturers is typically not precise enough. The goal of this thesis is to develop techniques for generating microarchitectural models automatically. In the first part, we focus on recent x86 microarchitectures. We implement a tool to accurately evaluate small microbenchmarks using hardware performance counters. We then describe techniques to automatically generate microbenchmarks for measuring the performance of individual instructions and for characterizing cache architectures. We apply our implementations to more than a dozen different microarchitectures. In the second part of the thesis, we study more general techniques to obtain models of hardware components. In particular, we propose the concept of gray-box learning, and we develop a learning algorithm for Mealy machines that exploits prior knowledge about the system to be learned. Finally, we show how this algorithm can be adapted to minimize incompletely specified Mealy machines—a well-known NP-complete problem. Our implementation outperforms existing exact minimization techniques by several orders of magnitude on a number of hard benchmarks; it is even competitive with state-of-the-art heuristic approaches.Zur Vorhersage, Erklärung oder Optimierung der Leistung von Software auf modernen Mikroprozessoren werden detaillierte Modelle der verwendeten Mikroarchitekturen benötigt. Das Erstellen derartiger Modelle ist oft mit einem hohen Aufwand verbunden, da die erforderlichen Informationen von den Prozessorherstellern typischerweise nicht zur Verfügung gestellt werden. Das Ziel der vorliegenden Arbeit ist es, Techniken zu entwickeln, um derartige Modelle automatisch zu erzeugen. Im ersten Teil beschäftigen wir uns mit aktuellen x86-Mikroarchitekturen. Wir entwickeln zuerst ein Tool, das kleine Microbenchmarks mithilfe von Performance Countern auswerten kann. Danach beschreiben wir Techniken, um automatisch Microbenchmarks zu erzeugen, mit denen die Leistung einzelner Instruktionen gemessen sowie die Cache-Architektur charakterisiert werden kann. Im zweiten Teil der Arbeit betrachten wir allgemeinere Techniken, um Hardwaremodelle zu erzeugen. Wir schlagen das Konzept des “Gray-Box Learning” vor, und wir entwickeln einen Lernalgorithmus für Mealy-Maschinen, der bekannte Informationen über das zu lernende System berücksichtigt. Zum Abschluss zeigen wir, wie dieser Algorithmus auf das Problem der Minimierung unvollständig spezifizierter Mealy-Maschinen übertragen werden kann. Hierbei handelt es sich um ein bekanntes NP-vollständiges Problem. Unsere Implementierung ist in mehreren Benchmarks um Größenordnungen schneller als vorherige Ansätze

WICC 2016 : XVIII Workshop de Investigadores en Ciencias de la Computación

Actas del XVIII Workshop de Investigadores en Ciencias de la Computación (WICC 2016), realizado en la Universidad Nacional de Entre Ríos, el 14 y 15 de abril de 2016.Red de Universidades con Carreras en Informática (RedUNCI