Brief Announcement: Using Nesting to Push the Limits of Transactional Data Structure Libraries

Transactional data structure libraries (TDSL) combine the ease-of-programming of transactions with the high performance and scalability of custom-tailored concurrent data structures. They can be very efficient thanks to their ability to exploit data structure semantics in order to reduce overhead, aborts, and wasted work compared to general-purpose software transactional memory. However, TDSLs were not previously used for complex use-cases involving long transactions and a variety of data structures. In this paper, we boost the performance and usability of a TDSL, towards allowing it to support complex applications. A key idea is nesting. Nested transactions create checkpoints within a longer transaction, so as to limit the scope of abort, without changing the semantics of the original transaction. We build a Java TDSL with built-in support for nested transactions over a number of data structures. We conduct a case study of a complex network intrusion detection system that invests a significant amount of work to process each packet. Our study shows that our library outperforms publicly available STMs twofold without nesting, and by up to 16x when nesting is used

STM: Lock-Free Synchronization

Current parallel programming uses low-level programming constructs like threads and explicit synchronization (for example, locks, semaphores and monitors) to coordinate thread execution which makes these programs difficult to design, program and debug. In this paper we present Software Transactional Memory (STM) which is a promising new approach for programming in parallel processors having shared memory. It is a concurrency control mechanism that is widely considered to be easier to use by programmers than other mechanisms such as locking. It allows portions of a program to execute in isolation, without regard to other, concurrently executing tasks. A programmer can reason about the correctness of code within a transaction and need not worry about complex interactions with other, concurrently executing parts of the program

Using Nesting to Push the Limits of Transactional Data Structure Libraries

Transactional data structure libraries (TDSL) combine the ease-of-programming of transactions with the high performance and scalability of custom-tailored concurrent data structures. They can be very efficient thanks to their ability to exploit data structure semantics in order to reduce overhead, aborts, and wasted work compared to general-purpose software transactional memory. However, TDSLs were not previously used for complex use-cases involving long transactions and a variety of data structures. In this paper, we boost the performance and usability of a TDSL, towards allowing it to support complex applications. A key idea is nesting. Nested transactions create checkpoints within a longer transaction, so as to limit the scope of abort, without changing the semantics of the original transaction. We build a Java TDSL with built-in support for nested transactions over a number of data structures. We conduct a case study of a complex network intrusion detection system that invests a significant amount of work to process each packet. Our study shows that our library outperforms publicly available STMs twofold without nesting, and by up to 16x when nesting is used

A self-healing framework for general software systems

Modern systems must guarantee high reliability, availability, and efficiency. Their complexity, exacerbated by the dynamic integration with other systems, the use of third- party services and the various different environments where they run, challenges development practices, tools and testing techniques. Testing cannot identify and remove all possible faults, thus faulty conditions may escape verification and validation activities and manifest themselves only after the system deployment. To cope with those failures, researchers have proposed the concept of self-healing systems. Such systems have the ability to examine their failures and to automatically take corrective actions. The idea is to create software systems that can integrate the knowledge that is needed to compensate for the effects of their imperfections. This knowledge is usually codified into the systems in the form of redundancy. Redundancy can be deliberately added into the systems as part of the design and the development process, as it occurs for many fault tolerance techniques. Although this kind of redundancy is widely applied, especially for safety- critical systems, it is however generally expensive to be used for common use software systems. We have some evidence that modern software systems are characterized by a different type of redundancy, which is not deliberately introduced but is naturally present due to the modern modular software design. We call it intrinsic redundancy. This thesis proposes a way to use the intrinsic redundancy of software systems to increase their reliability at a low cost. We first study the nature of the intrinsic redundancy to demonstrate that it actually exists. We then propose a way to express and encode such redundancy and an approach, Java Automatic Workaround, to exploit it automatically and at runtime to avoid system failures. Fundamentally, the Java Automatic Workaround approach replaces some failing operations with other alternative operations that are semantically equivalent in terms of the expected results and in the developer’s intent, but that they might have some syntactic difference that can ultimately overcome the failure. We qualitatively discuss the reasons of the presence of the intrinsic redundancy and we quantitatively study four large libraries to show that such redundancy is indeed a characteristic of modern software systems. We then develop the approach into a prototype and we evaluate it with four open source applications. Our studies show that the approach effectively exploits the intrinsic redundancy in avoiding failures automatically and at runtime

Transactions in Relaxed Memory Architectures

The integration of transactions into hardware relaxed memory architectures is a topic of current research both in industry and academia. In this paper, we provide a general architectural framework for the introduction of transactions into models of relaxed memory in hardware, including the sc, tso, armv8 and ppc models. Our framework incorporates flexible and expressive forms of transaction aborts and execution that have hitherto been in the realm of software transactional memory. In contrast to software transactional memory, we account for the characteristics of relaxed memory as a restricted form of distributed system, without a notion of global time. We prove abstraction theorems to demonstrate that the programmer API matches the intuitions and expectations about transactions

Implementation and Evaluation of Algorithmic Skeletons: Parallelisation of Computer Algebra Algorithms

This thesis presents design and implementation approaches for the parallel algorithms of computer algebra. We use algorithmic skeletons and also further approaches, like data parallel arithmetic and actors. We have implemented skeletons for divide and conquer algorithms and some special parallel loops, that we call ‘repeated computation with a possibility of premature termination’. We introduce in this thesis a rational data parallel arithmetic. We focus on parallel symbolic computation algorithms, for these algorithms our arithmetic provides a generic parallelisation approach. The implementation is carried out in Eden, a parallel functional programming language based on Haskell. This choice enables us to encode both the skeletons and the programs in the same language. Moreover, it allows us to refrain from using two different languages—one for the implementation and one for the interface—for our implementation of computer algebra algorithms. Further, this thesis presents methods for evaluation and estimation of parallel execution times. We partition the parallel execution time into two components. One of them accounts for the quality of the parallelisation, we call it the ‘parallel penalty’. The other is the sequential execution time. For the estimation, we predict both components separately, using statistical methods. This enables very confident estimations, although using drastically less measurement points than other methods. We have applied both our evaluation and estimation approaches to the parallel programs presented in this thesis. We haven also used existing estimation methods. We developed divide and conquer skeletons for the implementation of fast parallel multiplication. We have implemented the Karatsuba algorithm, Strassen’s matrix multiplication algorithm and the fast Fourier transform. The latter was used to implement polynomial convolution that leads to a further fast multiplication algorithm. Specially for our implementation of Strassen algorithm we have designed and implemented a divide and conquer skeleton basing on actors. We have implemented the parallel fast Fourier transform, and not only did we use new divide and conquer skeletons, but also developed a map-and-transpose skeleton. It enables good parallelisation of the Fourier transform. The parallelisation of Karatsuba multiplication shows a very good performance. We have analysed the parallel penalty of our programs and compared it to the serial fraction—an approach, known from literature. We also performed execution time estimations of our divide and conquer programs. This thesis presents a parallel map+reduce skeleton scheme. It allows us to combine the usual parallel map skeletons, like parMap, farm, workpool, with a premature termination property. We use this to implement the so-called ‘parallel repeated computation’, a special form of a speculative parallel loop. We have implemented two probabilistic primality tests: the Rabin–Miller test and the Jacobi sum test. We parallelised both with our approach. We analysed the task distribution and stated the fitting configurations of the Jacobi sum test. We have shown formally that the Jacobi sum test can be implemented in parallel. Subsequently, we parallelised it, analysed the load balancing issues, and produced an optimisation. The latter enabled a good implementation, as verified using the parallel penalty. We have also estimated the performance of the tests for further input sizes and numbers of processing elements. Parallelisation of the Jacobi sum test and our generic parallelisation scheme for the repeated computation is our original contribution. The data parallel arithmetic was defined not only for integers, which is already known, but also for rationals. We handled the common factors of the numerator or denominator of the fraction with the modulus in a novel manner. This is required to obtain a true multiple-residue arithmetic, a novel result of our research. Using these mathematical advances, we have parallelised the determinant computation using the Gauß elimination. As always, we have performed task distribution analysis and estimation of the parallel execution time of our implementation. A similar computation in Maple emphasised the potential of our approach. Data parallel arithmetic enables parallelisation of entire classes of computer algebra algorithms. Summarising, this thesis presents and thoroughly evaluates new and existing design decisions for high-level parallelisations of computer algebra algorithms

Parallel Methods for Mining Frequent Sequential patterns

The explosive growth of data and the rapid progress of technology have led to a huge amount of data that is collected every day. In that data volume contains much valuable information. Data mining is the emerging field of applying statistical and artificial intelligence techniques to the problem of finding novel, useful and non-trivial patterns from large databases. It is the task of discovering interesting patterns from large amounts of data. This is achieved by determining both implicit and explicit unidentified patterns in data that can direct the process of decision making. There are many data mining tasks, such as classification, clustering, association rule mining and sequential pattern mining. In that, sequential pattern mining is an important problem in data mining. It provides an effective way to analyze the sequence data. The goal of sequential pattern mining is to discover interesting, unexpected and useful patterns from sequence databases. This task is used in many wide applications such as financial data analysis of banks, retail industry, customer shopping history, goods transportation, consumption and services, telecommunication industry, biological data analysis, scientific applications, network intrusion detection, scientific research, etc. Different types of sequential pattern mining can be performed, they are sequential patterns, maximal sequential patterns, closed sequences, constraint based and time interval based sequential patterns. Sequential pattern mining refers to the identification of frequent subsequences in sequence databases as patterns. In the last two decades, researchers have proposed many techniques and algorithms for extracting the frequent sequential patterns, in which the downward closure property plays a fundamental role. Sequential pattern is a sequence of itemsets that frequently occur in a specific order, where all items in the same itemsets are supposed to have the same transaction time value. One of the challenges for sequential pattern mining is the computational costs beside that is the potentially huge number of extracted patterns. In this thesis, we present an overview of the work done for sequential pattern mining and develop parallel methods for mining frequent sequential patterns in sequence databases that can tackle emerging data processing workloads while coping with larger and larger scales.The explosive growth of data and the rapid progress of technology have led to a huge amount of data that is collected every day. In that data volume contains much valuable information. Data mining is the emerging field of applying statistical and artificial intelligence techniques to the problem of finding novel, useful and non-trivial patterns from large databases. It is the task of discovering interesting patterns from large amounts of data. This is achieved by determining both implicit and explicit unidentified patterns in data that can direct the process of decision making. There are many data mining tasks, such as classification, clustering, association rule mining and sequential pattern mining. In that, sequential pattern mining is an important problem in data mining. It provides an effective way to analyze the sequence data. The goal of sequential pattern mining is to discover interesting, unexpected and useful patterns from sequence databases. This task is used in many wide applications such as financial data analysis of banks, retail industry, customer shopping history, goods transportation, consumption and services, telecommunication industry, biological data analysis, scientific applications, network intrusion detection, scientific research, etc. Different types of sequential pattern mining can be performed, they are sequential patterns, maximal sequential patterns, closed sequences, constraint based and time interval based sequential patterns. Sequential pattern mining refers to the identification of frequent subsequences in sequence databases as patterns. In the last two decades, researchers have proposed many techniques and algorithms for extracting the frequent sequential patterns, in which the downward closure property plays a fundamental role. Sequential pattern is a sequence of itemsets that frequently occur in a specific order, where all items in the same itemsets are supposed to have the same transaction time value. One of the challenges for sequential pattern mining is the computational costs beside that is the potentially huge number of extracted patterns. In this thesis, we present an overview of the work done for sequential pattern mining and develop parallel methods for mining frequent sequential patterns in sequence databases that can tackle emerging data processing workloads while coping with larger and larger scales.460 - Katedra informatikyvyhově

Towards Scalable Synchronization on Multi-Cores

The shift of commodity hardware from single- to multi-core processors in the early 2000s compelled software developers to take advantage of the available parallelism of multi-cores. Unfortunately, only few---so-called embarrassingly parallel---applications can leverage this available parallelism in a straightforward manner. The remaining---non-embarrassingly parallel---applications require that their processes coordinate their possibly interleaved executions to ensure overall correctness---they require synchronization. Synchronization is achieved by constraining or even prohibiting parallel execution. Thus, per Amdahl's law, synchronization limits software scalability. In this dissertation, we explore how to minimize the effects of synchronization on software scalability. We show that scalability of synchronization is mainly a property of the underlying hardware. This means that synchronization directly hampers the cross-platform performance portability of concurrent software. Nevertheless, we can achieve portability without sacrificing performance, by creating design patterns and abstractions, which implicitly leverage hardware details without exposing them to software developers. We first perform an exhaustive analysis of the performance behavior of synchronization on several modern platforms. This analysis clearly shows that the performance and scalability of synchronization are highly dependent on the characteristics of the underlying platform. We then focus on lock-based synchronization and analyze the energy/performance trade-offs of various waiting techniques. We show that the performance and the energy efficiency of locks go hand in hand on modern x86 multi-cores. This correlation is again due to the characteristics of the hardware that does not provide practical tools for reducing the power consumption of locks without sacrificing throughput. We then propose two approaches for developing portable and scalable concurrent software, hence hiding the limitations that the underlying multi-cores impose. First, we introduce OPTIK, a new practical design pattern for designing and implementing fast and scalable concurrent data structures. We illustrate the power of our OPTIK pattern by devising five new algorithms and by optimizing four state-of-the-art algorithms for linked lists, skip lists, hash tables, and queues. Second, we introduce MCTOP, a multi-core topology abstraction which includes low-level information, such as memory bandwidths. MCTOP enables developers to accurately and portably define high-level optimization policies. We illustrate several such policies through four examples, including automated backoff schemes for locks, and illustrate the performance and portability of these policies on five platforms