Hardware software co-design of the Aho-Corasick algorithm: Scalable for protein identification?

Pattern matching is commonly required in many application areas and bioinformatics is a major area of interest that requires both exact and approximate pattern matching. Much work has been done in this area, yet there is still a significant space for improvement in efficiency, flexibility, and throughput. This paper presents a hardware software co-design of Aho-Corasick algorithm in Nios II soft-processor and a study on its scalability for a pattern matching application. A software only approach is used to compare the throughput and the scalability of the hardware software co-design approach. According to the results we obtained, we conclude that the hardware software co-design implementation shows a maximum of 10 times speed up for pattern size of 1200 peptides compared to the software only implementation. The results also show that the hardware software co-design approach scales well for increasing data size compared to the software only approach

Performance modeling of embedded applications with zero architectural knowledge

Performance estimation is a key step in the development of an embedded system. Normally, the performance evaluation is performed using a simulator or a performance mathematical model of the target architecture. However, both these approaches are usually based on the knowledge of the architectural details of the target. In this paper we present a methodology for automatically building an analytical model to estimate the performance of an application on a generic processor without requiring any information about the processor architecture but the one provided by the GNU GCC Intermediate Representation. The proposed methodology exploits the linear regression technique based on an application analysis performed on the Register Transfer Level internal representation of the GNU GCC compiler. The benefits of working with this type of model and with this intermediate representation are three: we take into account most of the compiler optimizations, we implicitly consider some architectural characteristics of the target processor and we can easily estimate the performance of portions of the specification. We validate our approach by evaluating with cross-validation technique the accuracy and the generality of the performance models built for the ARM926EJ-S and the LEON3 processor

Survey of Approaches and Techniques for Security Verification of Computer Systems

This paper surveys the landscape of security verification approaches and techniques for computer systems at various levels: from a software-application level all the way to the physical hardware level. Different existing projects are compared, based on the tools used and security aspects being examined. Since many systems require both hardware and software components to work together to provide the system\u27s promised security protections, it is not sufficient to verify just the software levels or just the hardware levels in a mutually exclusive fashion. This survey especially highlights system levels that are verified by the different existing projects and presents to the readers the state of the art in hardware and software system security verification. Few approaches come close to providing full-system verification, and there is still much room for improvement

Interactive Model-Based Compilation: A Modeller-Driven Development Approach

There is a growing tendency for using domain-specific languages, which help domain experts to stay focussed on abstract problem solutions. It is important to carefully design these languages and tools, which fundamentally perform model-to-model transformations. The quality of both usually decides the effectiveness of the subsequent development and therefore the quality of the final applications. However, as the complexity and safety requirements of modern systems grow, it becomes increasingly burdensome to create highly customized languages and difficult to provide reasonable overviews within these tools. This thesis introduces a new interactive model-based compilation methodology. Compilations for arbitrary model-to-model transformations are themselves described as models. They can be instantiated for particular inputs, e. g. a program, to create concrete compilation runs, which return the result of that compilation. The compilation instance is interactively observable. Intermediate results serve as new inputs and as documentation. They can be used to create highly customized views and facilitate understandability. This methodology guides modellers from the start of the compilation to the final result so that they can interactively refine their models. The methodology has been implemented and validated as the KIELER Compiler (KiCo) and is available as part of the KIELER open-source project. It is used to implement the current reference compiler for the SCCharts language, a statecharts dialect designed for specifying safety-critical reactive systems based on a synchronous model of computation. The interactive model-based compilation approach was key to the rapid prototyping of three different compilation strategies, as well as new language extensions, variations and closely related languages. The results are verified with benchmarks, which are again modelled using the same approach and technology. The usability of the SCCharts language and the KiCo tooling is documented with long-term surveys and real-life industrial, academic and teaching examples

Formal methods for functional verification of cache-coherent systems-on-chip

State-of-the-art System-on-Chip (SoC) architectures integrate many different components, such as processors, accelerators, memories, and I/O blocks. Some of those components, but not all, may have caches. Because the effort of validation with simulation-based techniques, currently used in industry, grows exponentially with the complexity of the SoC, this thesis investigates the use of formal verification techniques in this context. More precisely, we use the CADP toolbox to develop and validate a generic formal model of a heterogeneous cache-coherent SoC compliant with the recent AMBA 4 ACE specification proposed by ARM. We use a constraint-oriented specification style to model the general requirements of the specification. We verify system properties on both the constrained and unconstrained model to detect the cache coherency corner cases. We take advantage of the parametrization of the proposed model to produce a comprehensive set of counterexamples of non-satisfied properties in the unconstrained model. The results of formal verification are then used to improve the industrial simulation-based verification techniques in two aspects. On the one hand, we suggest using the formal model to assess the sanity of an interface verification unit. On the other hand, in order to generate clever semi-directed test cases from temporal logic properties, we propose a two-step approach. One step consists in generating system-level abstract test cases using model-based testing tools of the CADP toolbox. The other step consists in refining those tests into interface-level concrete test cases that can be executed at RTL level with a commercial Coverage-Directed Test Generation tool. We found that our approach helps in the transition between interface-level and system-level verification, facilitates the validation of system-level properties, and enables early detection of bugs in both the SoC and the commercial test-bench.Les architectures des systèmes sur puce (System-on-Chip, SoC) actuelles intègrent de nombreux composants différents tels que les processeurs, les accélérateurs, les mémoires et les blocs d'entrée/sortie, certains pouvant contenir des caches. Vu que l'effort de validation basée sur la simulation, actuellement utilisée dans l'industrie, croît de façon exponentielle avec la complexité des SoCs, nous nous intéressons à des techniques de vérification formelle. Nous utilisons la boîte à outils CADP pour développer et valider un modèle formel d'un SoC générique conforme à la spécification AMBA 4 ACE récemment proposée par ARM dans le but de mettre en œuvre la cohérence de cache au niveau système. Nous utilisons une spécification orientée contraintes pour modéliser les exigences générales de cette spécification. Les propriétés du système sont vérifié à la fois sur le modèle avec contraintes et le modèle sans contraintes pour détecter les cas intéressants pour la cohérence de cache. La paramétrisation du modèle proposé a permis de produire l'ensemble complet des contre-exemples qui ne satisfont pas une certaine propriété dans le modèle non contraint. Notre approche améliore les techniques industrielles de vérification basées sur la simulation en deux aspects. D'une part, nous suggérons l'utilisation du modèle formel pour évaluer la bonne construction d'une unité de vérification d'interface. D'autre part, dans l'objectif de générer des cas de test semi-dirigés intelligents à partir des propriétés de logique temporelle, nous proposons une approche en deux étapes. La première étape consiste à générer des cas de tests abstraits au niveau système en utilisant des outils de test basé sur modèle de la boîte à outils CADP. La seconde étape consiste à affiner ces tests en cas de tests concrets au niveau de l'interface qui peuvent être exécutés en RTL grâce aux services d'un outil commercial de génération de tests dirigés par les mesures de couverture. Nous avons constaté que notre approche participe dans la transition entre la vérification du niveau interface, classiquement pratiquée dans l'industrie du matériel, et la vérification au niveau système. Notre approche facilite aussi la validation des propriétés globales du système, et permet une détection précoce des bugs, tant dans le SoC que dans les bancs de test commerciales

Atas do XVII Simpósio Internacional de Informática Educativa

info:eu-repo/semantics/publishedVersio

Intensional Cyberforensics

This work focuses on the application of intensional logic to cyberforensic analysis and its benefits and difficulties are compared with the finite-state-automata approach. This work extends the use of the intensional programming paradigm to the modeling and implementation of a cyberforensics investigation process with backtracing of event reconstruction, in which evidence is modeled by multidimensional hierarchical contexts, and proofs or disproofs of claims are undertaken in an eductive manner of evaluation. This approach is a practical, context-aware improvement over the finite state automata (FSA) approach we have seen in previous work. As a base implementation language model, we use in this approach a new dialect of the Lucid programming language, called Forensic Lucid, and we focus on defining hierarchical contexts based on intensional logic for the distributed evaluation of cyberforensic expressions. We also augment the work with credibility factors surrounding digital evidence and witness accounts, which have not been previously modeled. The Forensic Lucid programming language, used for this intensional cyberforensic analysis, formally presented through its syntax and operational semantics. In large part, the language is based on its predecessor and codecessor Lucid dialects, such as GIPL, Indexical Lucid, Lucx, Objective Lucid, and JOOIP bound by the underlying intensional programming paradigm.Comment: 412 pages, 94 figures, 18 tables, 19 algorithms and listings; PhD thesis; v2 corrects some typos and refs; also available on Spectrum at http://spectrum.library.concordia.ca/977460