Mixing multi-core CPUs and GPUs for scientific simulation software

Recent technological and economic developments have led to widespread availability of multi-core CPUs and specialist accelerator processors such as graphical processing units (GPUs). The accelerated computational performance possible from these devices can be very high for some applications paradigms. Software languages and systems such as NVIDIA's CUDA and Khronos consortium's open compute language (OpenCL) support a number of individual parallel application programming paradigms. To scale up the performance of some complex systems simulations, a hybrid of multi-core CPUs for coarse-grained parallelism and very many core GPUs for data parallelism is necessary. We describe our use of hybrid applica- tions using threading approaches and multi-core CPUs to control independent GPU devices. We present speed-up data and discuss multi-threading software issues for the applications level programmer and o er some suggested areas for language development and integration between coarse-grained and ne-grained multi-thread systems. We discuss results from three common simulation algorithmic areas including: partial di erential equations; graph cluster metric calculations and random number generation. We report on programming experiences and selected performance for these algorithms on: single and multiple GPUs; multi-core CPUs; a CellBE; and using OpenCL. We discuss programmer usability issues and the outlook and trends in multi-core programming for scienti c applications developers

Uncovering Bugs in Distributed Storage Systems during Testing (not in Production!)

Testing distributed systems is challenging due to multiple sources of nondeterminism. Conventional testing techniques, such as unit, integration and stress testing, are ineffective in preventing serious but subtle bugs from reaching production. Formal techniques, such as TLA+, can only verify high-level specifications of systems at the level of logic-based models, and fall short of checking the actual executable code. In this paper, we present a new methodology for testing distributed systems. Our approach applies advanced systematic testing techniques to thoroughly check that the executable code adheres to its high-level specifications, which significantly improves coverage of important system behaviors. Our methodology has been applied to three distributed storage systems in the Microsoft Azure cloud computing platform. In the process, numerous bugs were identified, reproduced, confirmed and fixed. These bugs required a subtle combination of concurrency and failures, making them extremely difficult to find with conventional testing techniques. An important advantage of our approach is that a bug is uncovered in a small setting and witnessed by a full system trace, which dramatically increases the productivity of debugging

Kolmogorov Complexity in perspective. Part II: Classification, Information Processing and Duality

We survey diverse approaches to the notion of information: from Shannon entropy to Kolmogorov complexity. Two of the main applications of Kolmogorov complexity are presented: randomness and classification. The survey is divided in two parts published in a same volume. Part II is dedicated to the relation between logic and information system, within the scope of Kolmogorov algorithmic information theory. We present a recent application of Kolmogorov complexity: classification using compression, an idea with provocative implementation by authors such as Bennett, Vitanyi and Cilibrasi. This stresses how Kolmogorov complexity, besides being a foundation to randomness, is also related to classification. Another approach to classification is also considered: the so-called "Google classification". It uses another original and attractive idea which is connected to the classification using compression and to Kolmogorov complexity from a conceptual point of view. We present and unify these different approaches to classification in terms of Bottom-Up versus Top-Down operational modes, of which we point the fundamental principles and the underlying duality. We look at the way these two dual modes are used in different approaches to information system, particularly the relational model for database introduced by Codd in the 70's. This allows to point out diverse forms of a fundamental duality. These operational modes are also reinterpreted in the context of the comprehension schema of axiomatic set theory ZF. This leads us to develop how Kolmogorov's complexity is linked to intensionality, abstraction, classification and information system.Comment: 43 page

Applying Prolog to Develop Distributed Systems

Development of distributed systems is a difficult task. Declarative programming techniques hold a promising potential for effectively supporting programmer in this challenge. While Datalog-based languages have been actively explored for programming distributed systems, Prolog received relatively little attention in this application area so far. In this paper we present a Prolog-based programming system, called DAHL, for the declarative development of distributed systems. DAHL extends Prolog with an event-driven control mechanism and built-in networking procedures. Our experimental evaluation using a distributed hash-table data structure, a protocol for achieving Byzantine fault tolerance, and a distributed software model checker - all implemented in DAHL - indicates the viability of the approach

Using shared-data localization to reduce the cost of inspector-execution in unified-parallel-C programs

Programs written in the Unified Parallel C (UPC) language can access any location of the entire local and remote address space via read/write operations. However, UPC programs that contain fine-grained shared accesses can exhibit performance degradation. One solution is to use the inspector-executor technique to coalesce fine-grained shared accesses to larger remote access operations. A straightforward implementation of the inspector executor transformation results in excessive instrumentation that hinders performance.; This paper addresses this issue and introduces various techniques that aim at reducing the generated instrumentation code: a shared-data localization transformation based on Constant-Stride Linear Memory Descriptors (CSLMADs) [S. Aarseth, Gravitational N-Body Simulations: Tools and Algorithms, Cambridge Monographs on Mathematical Physics, Cambridge University Press, 2003.], the inlining of data locality checks and the usage of an index vector to aggregate the data. Finally, the paper introduces a lightweight loop code motion transformation to privatize shared scalars that were propagated through the loop body.; A performance evaluation, using up to 2048 cores of a POWER 775, explores the impact of each optimization and characterizes the overheads of UPC programs. It also shows that the presented optimizations increase performance of UPC programs up to 1.8 x their UPC hand-optimized counterpart for applications with regular accesses and up to 6.3 x for applications with irregular accesses.Peer ReviewedPostprint (author's final draft

Security Through Amnesia: A Software-Based Solution to the Cold Boot Attack on Disk Encryption

Disk encryption has become an important security measure for a multitude of clients, including governments, corporations, activists, security-conscious professionals, and privacy-conscious individuals. Unfortunately, recent research has discovered an effective side channel attack against any disk mounted by a running machine\cite{princetonattack}. This attack, known as the cold boot attack, is effective against any mounted volume using state-of-the-art disk encryption, is relatively simple to perform for an attacker with even rudimentary technical knowledge and training, and is applicable to exactly the scenario against which disk encryption is primarily supposed to defend: an adversary with physical access. To our knowledge, no effective software-based countermeasure to this attack supporting multiple encryption keys has yet been articulated in the literature. Moreover, since no proposed solution has been implemented in publicly available software, all general-purpose machines using disk encryption remain vulnerable. We present Loop-Amnesia, a kernel-based disk encryption mechanism implementing a novel technique to eliminate vulnerability to the cold boot attack. We offer theoretical justification of Loop-Amnesia's invulnerability to the attack, verify that our implementation is not vulnerable in practice, and present measurements showing our impact on I/O accesses to the encrypted disk is limited to a slowdown of approximately 2x. Loop-Amnesia is written for x86-64, but our technique is applicable to other register-based architectures. We base our work on loop-AES, a state-of-the-art open source disk encryption package for Linux.Comment: 13 pages, 4 figure