Galley: A New Parallel File System for Parallel Applications

Most current multiprocessor file systems are designed to use multiple disks in parallel, using the high aggregate bandwidth to meet the growing I/O requirements of parallel scientific applications. Most multiprocessor file systems provide applications with a conventional Unix-like interface, allowing the application to access those multiple disks transparently. This interface conceals the parallelism within the file system, increasing the ease of programmability, but making it difficult or impossible for sophisticated application and library programmers to use knowledge about their I/O to exploit that parallelism. In addition to providing an insufficient interface, most current multiprocessor file systems are optimized for a different workload than they are being asked to support. In this work we examine current multiprocessor file systems, as well as how those file systems are used by scientific applications. Contrary to the expectations of the designers of current parallel file systems, the workloads on those systems are dominated by requests to read and write small pieces of data. Furthermore, rather than being accessed sequentially and contiguously, as in uniprocessor and supercomputer workloads, files in multiprocessor file systems are accessed in regular, structured, but non-contiguous patterns. Based on our observations of multiprocessor workloads, we have designed Galley, a new parallel file system that is intended to efficiently support realistic scientific multiprocessor workloads. In this work, we introduce Galley and discuss its design and implementation. We describe Galley\u27s new three-dimensional file structure and discuss how that structure can be used by parallel applications to achieve higher performance. We introduce several new data-access interfaces, which allow applications to explicitly describe the regular access patterns we found to be common in parallel file system workloads. We show how these new interfaces allow parallel applications to achieve tremendous increases in I/O performance. Finally, we discuss how Galley\u27s new file structure and data-access interfaces can be useful in practice

Partial Replica Location And Selection For Spatial Datasets

As the size of scientific datasets continues to grow, we will not be able to store enormous datasets on a single grid node, but must distribute them across many grid nodes. The implementation of partial or incomplete replicas, which represent only a subset of a larger dataset, has been an active topic of research. Partial Spatial Replicas extend this functionality to spatial data, allowing us to distribute a spatial dataset in pieces over several locations. We investigate solutions to the partial spatial replica selection problems. First, we describe and develop two designs for an Spatial Replica Location Service (SRLS), which must return the set of replicas that intersect with a query region. Integrating a relational database, a spatial data structure and grid computing software, we build a scalable solution that works well even for several million replicas. In our SRLS, we have improved performance by designing a R-tree structure in the backend database, and by aggregating several queries into one larger query, which reduces overhead. We also use the Morton Space-filling Curve during R-tree construction, which improves spatial locality. In addition, we describe R-tree Prefetching(RTP), which effectively utilizes the modern multi-processor architecture. Second, we present and implement a fast replica selection algorithm in which a set of partial replicas is chosen from a set of candidates so that retrieval performance is maximized. Using an R-tree based heuristic algorithm, we achieve O(n log n) complexity for this NP-complete problem. We describe a model for disk access performance that takes filesystem prefetching into account and is sufficiently accurate for spatial replica selection. Making a few simplifying assumptions, we present a fast replica selection algorithm for partial spatial replicas. The algorithm uses a greedy approach that attempts to maximize performance by choosing a collection of replica subsets that allow fast data retrieval by a client machine. Experiments show that the performance of the solution found by our algorithm is on average always at least 91% and 93.4% of the performance of the optimal solution in 4-node and 8-node tests respectively

RAID Organizations for Improved Reliability and Performance: A Not Entirely Unbiased Tutorial (1st revision)

RAID proposal advocated replacing large disks with arrays of PC disks, but as the capacity of small disks increased 100-fold in 1990s the production of large disks was discontinued. Storage dependability is increased via replication or erasure coding. Cloud storage providers store multiple copies of data obviating for need for further redundancy. Varitaions of RAID based on local recovery codes, partial MDS reduce recovery cost. NAND flash Solid State Disks - SSDs have low latency and high bandwidth, are more reliable, consume less power and have a lower TCO than Hard Disk Drives, which are more viable for hyperscalers.Comment: Submitted to ACM Computing Surveys. arXiv admin note: substantial text overlap with arXiv:2306.0876

DISTRIBUTED MULTIDIMENSIONAL INDEXING FOR SCIENTIFIC DATA ANALYSIS APPLICATIONS

Scientific data analysis applications require large scale computing power to effectively service client queries and also require large storage repositories for datasets that are generated continually from sensors and simulations. These scientific datasets are growing in size every day, and are becoming truly enormous. The goal of this dissertation is to provide efficient multidimensional indexing techniques that aid in navigating distributed scientific datasets. In this dissertation, we show significant improvements in accessing distributed large scientific datasets. The first approach we took to improve access to subsets of large multidimensional scientific datasets, was data chunking. The contents of scientific data files typically are a collection of multidimensional arrays, along with the corresponding metadata. Data chunking groups data elements into small chunks of a fixed, but data-specific, size to take advantage of spatio-temporal locality since it is not efficient to index individual data elements of large scientific datasets. The second approach was the design of an efficient multidimensional index for scientific datasets. This work investigates how existing multidimensional indexing structures perform on chunked scientific datasets, and compares their performance with that of our own indexing structure, SH-trees. Since R-trees were proposed, various multidimensional indexing structures have been proposed. However, there are a relatively small number of studies focused on improving the performance of indexing geographically distributed datasets, especially across heterogeneous machines. As a third approach, in an attempt to accelerate indexing performance for distributed datasets, we proposed several distributed multidimensional indexing schemes: replicated centralized indexing, hierarchical two level indexing, and decentralized two level indexing. Our experimental results show that great performance improvements are gained from distribution of multidimensional index. However, the design choices for distributed indexing, such as replication, partitioning, and decentralization, must be carefully considered since they may decrease the overall performance in certain situations. Therefore, this work provides performance guidelines to aid in selecting the best distributed multidimensional indexing scheme for various systems and applications. Finally, we describe how a distributed multidimensional indexing scheme can be used by a distributed multiple query optimization middleware as a case-study application to generate better query plans by leveraging information about the contents of remote caches

Arquitectura, técnicas y modelos para posibilitar la Ciencia de Datos en el Archivo de la Misión Gaia

Tesis inédita de la Universidad Complutense de Madrid, Facultad de Informática, Departamento de Arquitectura de Computadores y Automática, leída el 26/05/2017.The massive amounts of data that the world produces every day pose new challenges to modern societies in terms of how to leverage their inherent value. Social networks, instant messaging, video, smart devices and scientific missions are just mere examples of the vast number of sources generating data every second. As the world becomes more and more digitalized, new needs arise for organizing, archiving, sharing, analyzing, visualizing and protecting the ever-increasing data sets, so that we can truly develop into a data-driven economy that reduces inefficiencies and increases sustainability, creating new business opportunities on the way. Traditional approaches for harnessing data are not suitable any more as they lack the means for scaling to the larger volumes in a timely and cost efficient manner. This has somehow changed with the advent of Internet companies like Google and Facebook, which have devised new ways of tackling this issue. However, the variety and complexity of the value chains in the private sector as well as the increasing demands and constraints in which the public one operates, needs an ongoing research that can yield newer strategies for dealing with data, facilitate the integration of providers and consumers of information, and guarantee a smooth and prompt transition when adopting these cutting-edge technological advances. This thesis aims at providing novel architectures and techniques that will help perform this transition towards Big Data in massive scientific archives. It highlights the common pitfalls that must be faced when embracing it and how to overcome them, especially when the data sets, their transformation pipelines and the tools used for the analysis are already present in the organizations. Furthermore, a new perspective for facilitating a smoother transition is laid out. It involves the usage of higher-level and use case specific frameworks and models, which will naturally bridge the gap between the technological and scientific domains. This alternative will effectively widen the possibilities of scientific archives and therefore will contribute to the reduction of the time to science. The research will be applied to the European Space Agency cornerstone mission Gaia, whose final data archive will represent a tremendous discovery potential. It will create the largest and most precise three dimensional chart of our galaxy (the Milky Way), providing unprecedented position, parallax and proper motion measurements for about one billion stars. The successful exploitation of this data archive will depend to a large degree on the ability to offer the proper architecture, i.e. infrastructure and middleware, upon which scientists will be able to do exploration and modeling with this huge data set. In consequence, the approach taken needs to enable data fusion with other scientific archives, as this will produce the synergies leading to an increment in scientific outcome, both in volume and in quality. The set of novel techniques and frameworks presented in this work addresses these issues by contextualizing them with the data products that will be generated in the Gaia mission. All these considerations have led to the foundations of the architecture that will be leveraged by the Science Enabling Applications Work Package. Last but not least, the effectiveness of the proposed solution will be demonstrated through the implementation of some ambitious statistical problems that will require significant computational capabilities, and which will use Gaia-like simulated data (the first Gaia data release has recently taken place on September 14th, 2016). These ambitious problems will be referred to as the Grand Challenge, a somewhat grandiloquent name that consists in inferring a set of parameters from a probabilistic point of view for the Initial Mass Function (IMF) and Star Formation Rate (SFR) of a given set of stars (with a huge sample size), from noisy estimates of their masses and ages respectively. This will be achieved by using Hierarchical Bayesian Modeling (HBM). In principle, the HBM can incorporate stellar evolution models to infer the IMF and SFR directly, but in this first step presented in this thesis, we will start with a somewhat less ambitious goal: inferring the PDMF and PDAD. Moreover, the performance and scalability analyses carried out will also prove the suitability of the models for the large amounts of data that will be available in the Gaia data archive.Las grandes cantidades de datos que se producen en el mundo diariamente plantean nuevos retos a la sociedad en términos de cómo extraer su valor inherente. Las redes sociales, mensajería instantánea, los dispositivos inteligentes y las misiones científicas son meros ejemplos del gran número de fuentes generando datos en cada momento. Al mismo tiempo que el mundo se digitaliza cada vez más, aparecen nuevas necesidades para organizar, archivar, compartir, analizar, visualizar y proteger la creciente cantidad de datos, para que podamos desarrollar economías basadas en datos e información que sean capaces de reducir las ineficiencias e incrementar la sostenibilidad, creando nuevas oportunidades de negocio por el camino. La forma en la que se han manejado los datos tradicionalmente no es la adecuada hoy en día, ya que carece de los medios para escalar a los volúmenes más grandes de datos de una forma oportuna y eficiente. Esto ha cambiado de alguna manera con la llegada de compañías que operan en Internet como Google o Facebook, ya que han concebido nuevas aproximaciones para abordar el problema. Sin embargo, la variedad y complejidad de las cadenas de valor en el sector privado y las crecientes demandas y limitaciones en las que el sector público opera, necesitan una investigación continua en la materia que pueda proporcionar nuevas estrategias para procesar las enormes cantidades de datos, facilitar la integración de productores y consumidores de información, y garantizar una transición rápida y fluida a la hora de adoptar estos avances tecnológicos innovadores. Esta tesis tiene como objetivo proporcionar nuevas arquitecturas y técnicas que ayudarán a realizar esta transición hacia Big Data en archivos científicos masivos. La investigación destaca los escollos principales a encarar cuando se adoptan estas nuevas tecnologías y cómo afrontarlos, principalmente cuando los datos y las herramientas de transformación utilizadas en el análisis existen en la organización. Además, se exponen nuevas medidas para facilitar una transición más fluida. Éstas incluyen la utilización de software de alto nivel y específico al caso de uso en cuestión, que haga de puente entre el dominio científico y tecnológico. Esta alternativa ampliará de una forma efectiva las posibilidades de los archivos científicos y por tanto contribuirá a la reducción del tiempo necesario para generar resultados científicos a partir de los datos recogidos en las misiones de astronomía espacial y planetaria. La investigación se aplicará a la misión de la Agencia Espacial Europea (ESA) Gaia, cuyo archivo final de datos presentará un gran potencial para el descubrimiento y hallazgo desde el punto de vista científico. La misión creará el catálogo en tres dimensiones más grande y preciso de nuestra galaxia (la Vía Láctea), proporcionando medidas sin precedente acerca del posicionamiento, paralaje y movimiento propio de alrededor de mil millones de estrellas. Las oportunidades para la explotación exitosa de este archivo de datos dependerán en gran medida de la capacidad de ofrecer la arquitectura adecuada, es decir infraestructura y servicios, sobre la cual los científicos puedan realizar la exploración y modelado con esta inmensa cantidad de datos. Por tanto, la estrategia a realizar debe ser capaz de combinar los datos con otros archivos científicos, ya que esto producirá sinergias que contribuirán a un incremento en la ciencia producida, tanto en volumen como en calidad de la misma. El conjunto de técnicas e infraestructuras innovadoras presentadas en este trabajo aborda estos problemas, contextualizándolos con los productos de datos que se generarán en la misión Gaia. Todas estas consideraciones han conducido a los fundamentos de la arquitectura que se utilizará en el paquete de trabajo de aplicaciones que posibilitarán la ciencia en el archivo de la misión Gaia (Science Enabling Applications). Por último, la eficacia de la solución propuesta se demostrará a través de la implementación de dos problemas estadísticos que requerirán cantidades significativas de cómputo, y que usarán datos simulados en el mismo formato en el que se producirán en el archivo de la misión Gaia (la primera versión de datos recogidos por la misión está disponible desde el día 14 de Septiembre de 2016). Estos ambiciosos problemas representan el Gran Reto (Grand Challenge), un nombre grandilocuente que consiste en inferir una serie de parámetros desde un punto de vista probabilístico para la función de masa inicial (Initial Mass Function) y la tasa de formación estelar (Star Formation Rate) dado un conjunto de estrellas (con una muestra grande), desde estimaciones con ruido de sus masas y edades respectivamente. Esto se abordará utilizando modelos jerárquicos bayesianos (Hierarchical Bayesian Modeling). Enprincipio,losmodelospropuestos pueden incorporar otros modelos de evolución estelar para inferir directamente la función de masa inicial y la tasa de formación estelar, pero en este primer paso presentado en esta tesis, empezaremos con un objetivo algo menos ambicioso: la inferencia de la función de masa y distribución de edades actual (Present-Day Mass Function y Present-Day Age Distribution respectivamente). Además, se llevará a cabo el análisis de rendimiento y escalabilidad para probar la idoneidad de la implementación de dichos modelos dadas las enormes cantidades de datos que estarán disponibles en el archivo de la misión Gaia...Depto. de Arquitectura de Computadores y AutomáticaFac. de InformáticaTRUEunpu

The Third NASA Goddard Conference on Mass Storage Systems and Technologies

This report contains copies of nearly all of the technical papers and viewgraphs presented at the Goddard Conference on Mass Storage Systems and Technologies held in October 1993. The conference served as an informational exchange forum for topics primarily relating to the ingestion and management of massive amounts of data and the attendant problems involved. Discussion topics include the necessary use of computers in the solution of today's infinitely complex problems, the need for greatly increased storage densities in both optical and magnetic recording media, currently popular storage media and magnetic media storage risk factors, data archiving standards including a talk on the current status of the IEEE Storage Systems Reference Model (RM). Additional topics addressed System performance, data storage system concepts, communications technologies, data distribution systems, data compression, and error detection and correction

Process algebra approach to parallel DBMS performance modelling

Abstract unavailable please refer to PD

Processing Exact Results for Queries over Data Streams

In a growing number of information-processing applications, such as network-traffic monitoring, sensor networks, financial analysis, data mining for e-commerce, etc., data takes the form of continuous data streams rather than traditional stored databases/relational tuples. These applications have some common features like the need for real time analysis, huge volumes of data, and unpredictable and bursty arrivals of stream elements. In all of these applications, it is infeasible to process queries over data streams by loading the data into a traditional database management system (DBMS) or into main memory. Such an approach does not scale with high stream rates. As a consequence, systems that can manage streaming data have gained tremendous importance. The need to process a large number of continuous queries over bursty, high volume online data streams, potentially in real time, makes it imperative to design algorithms that should use limited resources. This dissertation focuses on processing exact results for join queries over high speed data streams using limited resources, and proposes several novel techniques for processing join queries incorporating secondary storages and non-dedicated computers. Existing approaches for stream joins either, (a) deal with memory limitations by shedding loads, and therefore can not produce exact or highly accurate results for the stream joins over data streams with time varying arrivals of stream tuples, or (b) suffer from large I/O-overheads due to random disk accesses. The proposed techniques exploit the high bandwidth of a disk subsystem by rendering the data access pattern largely sequential, eliminating small, random disk accesses. This dissertation proposes an I/O-efficient algorithm to process hybrid join queries, that join a fast, time varying or bursty data stream and a persistent disk relation. Such a hybrid join is the crux of a number of common transformations in an active data warehouse. Experimental results demonstrate that the proposed scheme reduces the response time in output results by exploiting spatio-temporal locality within the input stream, and minimizes disk overhead through disk-I/O amortization. The dissertation also proposes an algorithm to parallelize a stream join operator over a shared-nothing system. The proposed algorithm distributes the processing loads across a number of independent, non-dedicated nodes, based on a fixed or predefined communication pattern; dynamically maintains the degree of declustering in order to minimize communication and processing overheads; and presents mechanisms for reducing storage and communication overheads while scaling over a large number of nodes. We present experimental results showing the efficacy of the proposed algorithms