Kernel-assisted and Topology-aware MPI Collective Communication among Multicore or Many-core Clusters

Multicore or many-core clusters have become the most prominent form of High Performance Computing (HPC) systems. Hardware complexity and hierarchies not only exist in the inter-node layer, i.e., hierarchical networks, but also exist in internals of multicore compute nodes, e.g., Non Uniform Memory Accesses (NUMA), network-style interconnect, and memory and shared cache hierarchies. Message Passing Interface (MPI), the most widely adopted in the HPC communities, suffers from decreased performance and portability due to increased hardware complexity of multiple levels. We identified three critical issues specific to collective communication: The first problem arises from the gap between logical collective topologies and underlying hardware topologies; Second, current MPI communications lack efficient shared memory message delivering approaches; Last, on distributed memory machines, like multicore clusters, a single approach cannot encompass the extreme variations not only in the bandwidth and latency capabilities, but also in features such as the aptitude to operate multiple concurrent copies simultaneously. To bridge the gap between logical collective topologies and hardware topologies, we developed a distance-aware framework to integrate the knowledge of hardware distance into collective algorithms in order to dynamically reshape the communication patterns to suit the hardware capabilities. Based on process distance information, we used graph partitioning techniques to organize the MPI processes in a multi-level hierarchy, mapping on the hardware characteristics. Meanwhile, we took advantage of the kernel-assisted one-sided single-copy approach (KNEM) as the default shared memory delivering method. Via kernel-assisted memory copy, the collective algorithms offload copy tasks onto non-leader/not-root processes to evenly distribute copy workloads among available cores. Finally, on distributed memory machines, we developed a technique to compose multi-layered collective algorithms together to express a multi-level algorithm with tight interoperability between the levels. This tight collaboration results in more overlaps between inter- and intra-node communication. Experimental results have confirmed that, by leveraging several technologies together, such as kernel-assisted memory copy, the distance-aware framework, and collective algorithm composition, not only do MPI collectives reach the potential maximum performance on a wide variation of platforms, but they also deliver a level of performance immune to modifications of the underlying process-core binding

Interval simulation: raising the level of abstraction in architectural simulation

Detailed architectural simulators suffer from a long development cycle and extremely long evaluation times. This longstanding problem is further exacerbated in the multi-core processor era. Existing solutions address the simulation problem by either sampling the simulated instruction stream or by mapping the simulation models on FPGAs; these approaches achieve substantial simulation speedups while simulating performance in a cycle-accurate manner This paper proposes interval simulation which rakes a completely different approach: interval simulation raises the level of abstraction and replaces the core-level cycle-accurate simulation model by a mechanistic analytical model. The analytical model estimates core-level performance by analyzing intervals, or the timing between two miss events (branch mispredictions and TLB/cache misses); the miss events are determined through simulation of the memory hierarchy, cache coherence protocol, interconnection network and branch predictor By raising the level of abstraction, interval simulation reduces both development time and evaluation time. Our experimental results using the SPEC CPU2000 and PARSEC benchmark suites and the MS multi-core simulator show good accuracy up to eight cores (average error of 4.6% and max error of 11% for the multi-threaded full-system workloads), while achieving a one order of magnitude simulation speedup compared to cycle-accurate simulation. Moreover interval simulation is easy to implement: our implementation of the mechanistic analytical model incurs only one thousand lines of code. Its high accuracy, fast simulation speed and ease-of-use make interval simulation a useful complement to the architect's toolbox for exploring system-level and high-level micro-architecture trade-offs

Scaling Deep Learning on GPU and Knights Landing clusters

The speed of deep neural networks training has become a big bottleneck of deep learning research and development. For example, training GoogleNet by ImageNet dataset on one Nvidia K20 GPU needs 21 days. To speed up the training process, the current deep learning systems heavily rely on the hardware accelerators. However, these accelerators have limited on-chip memory compared with CPUs. To handle large datasets, they need to fetch data from either CPU memory or remote processors. We use both self-hosted Intel Knights Landing (KNL) clusters and multi-GPU clusters as our target platforms. From an algorithm aspect, current distributed machine learning systems are mainly designed for cloud systems. These methods are asynchronous because of the slow network and high fault-tolerance requirement on cloud systems. We focus on Elastic Averaging SGD (EASGD) to design algorithms for HPC clusters. Original EASGD used round-robin method for communication and updating. The communication is ordered by the machine rank ID, which is inefficient on HPC clusters. First, we redesign four efficient algorithms for HPC systems to improve EASGD's poor scaling on clusters. Async EASGD, Async MEASGD, and Hogwild EASGD are faster \textcolor{black}{than} their existing counterparts (Async SGD, Async MSGD, and Hogwild SGD, resp.) in all the comparisons. Finally, we design Sync EASGD, which ties for the best performance among all the methods while being deterministic. In addition to the algorithmic improvements, we use some system-algorithm codesign techniques to scale up the algorithms. By reducing the percentage of communication from 87% to 14%, our Sync EASGD achieves 5.3x speedup over original EASGD on the same platform. We get 91.5% weak scaling efficiency on 4253 KNL cores, which is higher than the state-of-the-art implementation

Using the SkelCL Library for High-Level GPU Programming of 2D Applications

Application programming for GPUs (Graphics Processing Units) is complex and error-prone, because the popular approaches — CUDA and OpenCL — are intrinsically low-level and offer no special support for systems consisting of multiple GPUs. The SkelCL library offers pre-implemented recurring computation and communication patterns (skeletons) which greatly simplify programming for single- and multi-GPU systems. In this paper, we focus on applications that work on two-dimensional data. We extend SkelCL by the matrix data type and the MapOverlap skeleton which specifies computations that depend on neighboring elements in a matrix. The abstract data types and a high-level data (re)distribution mechanism of SkelCL shield the programmer from the low-level data transfers between the system’s main memory and multiple GPUs. We demonstrate how the extended SkelCL is used to implement real-world image processing applications on two-dimensional data. We show that both from a productivity and a performance point of view it is beneficial to use the high-level abstractions of SkelCL

Threads and Or-Parallelism Unified

One of the main advantages of Logic Programming (LP) is that it provides an excellent framework for the parallel execution of programs. In this work we investigate novel techniques to efficiently exploit parallelism from real-world applications in low cost multi-core architectures. To achieve these goals, we revive and redesign the YapOr system to exploit or-parallelism based on a multi-threaded implementation. Our new approach takes full advantage of the state-of-the-art fast and optimized YAP Prolog engine and shares the underlying execution environment, scheduler and most of the data structures used to support YapOr's model. Initial experiments with our new approach consistently achieve almost linear speedups for most of the applications, proving itself as a good alternative for exploiting implicit parallelism in the currently available low cost multi-core architectures.Comment: 17 pages, 21 figures, International Conference on Logic Programming (ICLP 2010