HPCC Update and Analysis

Abstract: The last year has seen significant updates in the programming environment and operating systems on the Cray X1E and Cray XT3 as well as the much anticipated release of version 1.0 of HPCC Benchmark. This paper will provide an update and analysis of the HPCC Benchmark Results for Cray XT3 and X1E as well as a comparison against historical results

Interconnect Performance Evaluation of SGI Altix 3700 BX2, Cray X1, Cray Opteron Cluster, and Dell PowerEdge

We study the performance of inter-process communication on four high-speed multiprocessor systems using a set of communication benchmarks. The goal is to identify certain limiting factors and bottlenecks with the interconnect of these systems as well as to compare these interconnects. We measured network bandwidth using different number of communicating processors and communication patterns, such as point-to-point communication, collective communication, and dense communication patterns. The four platforms are: a 512-processor SGI Altix 3700 BX2 shared-memory machine with 3.2 GB/s links; a 64-processor (single-streaming) Cray XI shared-memory machine with 32 1.6 GB/s links; a 128-processor Cray Opteron cluster using a Myrinet network; and a 1280-node Dell PowerEdge cluster with an InfiniBand network. Our, results show the impact of the network bandwidth and topology on the overall performance of each interconnect

Scalable Distributed DNN Training using TensorFlow and CUDA-Aware MPI: Characterization, Designs, and Performance Evaluation

TensorFlow has been the most widely adopted Machine/Deep Learning framework. However, little exists in the literature that provides a thorough understanding of the capabilities which TensorFlow offers for the distributed training of large ML/DL models that need computation and communication at scale. Most commonly used distributed training approaches for TF can be categorized as follows: 1) Google Remote Procedure Call (gRPC), 2) gRPC+X: X=(InfiniBand Verbs, Message Passing Interface, and GPUDirect RDMA), and 3) No-gRPC: Baidu Allreduce with MPI, Horovod with MPI, and Horovod with NVIDIA NCCL. In this paper, we provide an in-depth performance characterization and analysis of these distributed training approaches on various GPU clusters including the Piz Daint system (6 on Top500). We perform experiments to gain novel insights along the following vectors: 1) Application-level scalability of DNN training, 2) Effect of Batch Size on scaling efficiency, 3) Impact of the MPI library used for no-gRPC approaches, and 4) Type and size of DNN architectures. Based on these experiments, we present two key insights: 1) Overall, No-gRPC designs achieve better performance compared to gRPC-based approaches for most configurations, and 2) The performance of No-gRPC is heavily influenced by the gradient aggregation using Allreduce. Finally, we propose a truly CUDA-Aware MPI Allreduce design that exploits CUDA kernels and pointer caching to perform large reductions efficiently. Our proposed designs offer 5-17X better performance than NCCL2 for small and medium messages, and reduces latency by 29% for large messages. The proposed optimizations help Horovod-MPI to achieve approximately 90% scaling efficiency for ResNet-50 training on 64 GPUs. Further, Horovod-MPI achieves 1.8X and 3.2X higher throughput than the native gRPC method for ResNet-50 and MobileNet, respectively, on the Piz Daint cluster.Comment: 10 pages, 9 figures, submitted to IEEE IPDPS 2019 for peer-revie

Supporting Relative Debugging for Large-scale UPC Programs

AbstractRelative debugging is a useful technique for locating errors that emerge from porting existing code to new programming language or to new computing platform. Recent attention on the UPC programming language has resulted in a number of conventional parallel programs, for example MPI programs, being ported to UPC. This paper gives an overview on the data distribution concepts used in UPC and establishes the challenges in supporting relative debugging technique for UPC programs that run on large supercomputers. The proposed solution is implemented on an existing parallel relative debugger CCDB, and the performance is evaluated on a Cray XE6 system with 16,348 cores

A cluster computer performance predictor for memory scheduling

Remote Memory Access (RMA) hardware allow a given motherboard in a cluster to directly access the memory installed in a remote motherboard of the same cluster. In recent works, this characteristic has been used to extend the addressable memory space of selected motherboards, which enable a better balance of main memory resources among cluster applications. This way is much more cost-effective than than implementing a full-fledged shared memory system. In this context, the memory scheduler is in charge of finding a suitable distribution of local and remote memory that maximizes the performance and guarantees a minimum QoS among the applications. Note that since changing the memory distribution is a slow process involving several motherboards, the memory scheduler needs to make sure that the target distribution provides better performance than the current one. In this paper, a performance predictor is designed in order to find the best memory distribution for a given set of applications executing in a cluster motherboard. The predictor uses simple hardware counters to estimate the expected impact on performance of the different memory distributions. The hardware counters provide the predictor with the information about the time spent in processor, memory access and network. The performance model used by the predictor has been validated in a detailed microarchitectural simulator using real benchmarks. Results show that the prediction accuracy never deviates more than 5% compared to the real results, being less than 0.5% in most of the cases.This work was supported by Spanish CICYT under Grant TIN2009-14475-C04-01, and by Consolider-Ingenio under Grant CSD2006-00046Serrano Gómez, M.; Sahuquillo Borrás, J.; Hassan Mohamed, H.; Petit Martí, SV.; Duato Marín, JF. (2011). A cluster computer performance predictor for memory scheduling. 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ACM, New York (2006)Kumar, S., Dózsa, G., Almasi, G., Heidelberger, P., Chen, D., Giampapa, M., Blocksome, M., Faraj, A., Parker, J., Ratterman, J., Smith, B.E., Archer, C.: The deep computing messaging framework: generalized scalable message passing on the blue gene/P supercomputer. In: ICS, pp. 94–103 (2008)Tipparaju, V., Kot, A., Nieplocha, J., Bruggencate, M.T., Chrisochoides, N.: Evaluation of Remote Memory Access Communication on the Cray XT3. In: IEEE International Parallel and Distributed Processing Symposium, pp. 1–7 (March 2007)HyperTransport Technology Consortium. HyperTransport I/O Link Specification Revision (October 3, 2008)Serrano, M., Sahuquillo, J., Hassan, H., Petit, S., Duato, J.: A scheduling heuristic to handle local and remote memory in cluster computers. In: High Performance Computing and Communications (2010) (accepted for publication)Serrano, M., Sahuquillo, J., Petit, S., Hassan, H., Duato, J.: A cost-effective heuristic to schedule local and remote memory in cluster computers. The Journal of Supercomputing, 1–19 (2011), doi:10.1007/s11227-011-0566-8Ubal, R., Sahuquillo, J., Petit, S., López, P.: Multi2Sim: A Simulation Framework to Evaluate Multicore-Multithreaded Processors. In: Proceedings of the 19th International Symposium on Computer Architecture and High Performance Computing (2007)Keltcher, C.N., McGrath, K.J., Ahmed, A., Conway, P.: The AMD Opteron Processor for Multiprocessor Servers. IEEE Micro 23(2), 66–76 (2003)Duato, J., Silla, F., Yalamanchili, S.: Extending HyperTransport Protocol for Improved Scalability. 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Characterization and modeling of PIDX parallel I/O for performance optimization

pre-printParallel I/O library performance can vary greatly in re- sponse to user-tunable parameter values such as aggregator count, file count, and aggregation strategy. Unfortunately, manual selection of these values is time consuming and dependent on characteristics of the target machine, the underlying file system, and the dataset itself. Some characteristics, such as the amount of memory per core, can also impose hard constraints on the range of viable parameter values. In this work we address these problems by using machine learning techniques to model the performance of the PIDX parallel I/O library and select appropriate tunable parameter values. We characterize both the network and I/O phases of PIDX on a Cray XE6 as well as an IBM Blue Gene/P system. We use the results of this study to develop a machine learning model for parameter space exploration and performance prediction

SpiNNaker: Fault tolerance in a power- and area- constrained large-scale neuromimetic architecture

AbstractSpiNNaker is a biologically-inspired massively-parallel computer designed to model up to a billion spiking neurons in real-time. A full-fledged implementation of a SpiNNaker system will comprise more than 105 integrated circuits (half of which are SDRAMs and half multi-core systems-on-chip). Given this scale, it is unavoidable that some components fail and, in consequence, fault-tolerance is a foundation of the system design. Although the target application can tolerate a certain, low level of failures, important efforts have been devoted to incorporate different techniques for fault tolerance. This paper is devoted to discussing how hardware and software mechanisms collaborate to make SpiNNaker operate properly even in the very likely scenario of component failures and how it can tolerate system-degradation levels well above those expected