A scalable processing-in-memory accelerator for parallel graph processing
13 Jun 2015-Vol. 43, Iss: 3, pp 105-117
TL;DR: This work argues that the conventional concept of processing-in-memory (PIM) can be a viable solution to achieve memory-capacity-proportional performance and designs a programmable PIM accelerator for large-scale graph processing called Tesseract.
Abstract: The explosion of digital data and the ever-growing need for fast data analysis have made in-memory big-data processing in computer systems increasingly important. In particular, large-scale graph processing is gaining attention due to its broad applicability from social science to machine learning. However, scalable hardware design that can efficiently process large graphs in main memory is still an open problem. Ideally, cost-effective and scalable graph processing systems can be realized by building a system whose performance increases proportionally with the sizes of graphs that can be stored in the system, which is extremely challenging in conventional systems due to severe memory bandwidth limitations. In this work, we argue that the conventional concept of processing-in-memory (PIM) can be a viable solution to achieve such an objective. The key modern enabler for PIM is the recent advancement of the 3D integration technology that facilitates stacking logic and memory dies in a single package, which was not available when the PIM concept was originally examined. In order to take advantage of such a new technology to enable memory-capacity-proportional performance, we design a programmable PIM accelerator for large-scale graph processing called Tesseract. Tesseract is composed of (1) a new hardware architecture that fully utilizes the available memory bandwidth, (2) an efficient method of communication between different memory partitions, and (3) a programming interface that reflects and exploits the unique hardware design. It also includes two hardware prefetchers specialized for memory access patterns of graph processing, which operate based on the hints provided by our programming model. Our comprehensive evaluations using five state-of-the-art graph processing workloads with large real-world graphs show that the proposed architecture improves average system performance by a factor of ten and achieves 87% average energy reduction over conventional systems.
Citations
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11 Sep 2016
TL;DR: This work proposes a new NDP architecture that does not change the existing sequential programming model and does not require any modification to the processor microarchitecture, and proposes batching multiple LLT operations together to amortize the cost of NDP by utilizing the highly parallel execution of NDP processing units and the high bandwidth of 3D stacked DRAM.
Abstract: Recent technology advances in memory system design, along with 3D stacking, have made near-data processing (NDP) more feasible to accelerate different workloads. In this work, we explore the near-data processing opportunity of a fundamental operation - linked-list traversal (LLT). We propose a new NDP architecture which does not change the existing sequential programming model and does not require any modification to the core microarchitecture. Instead, we exploit the packetized interface between the core and the memory modules to off-load LLT for NDP. We assume a system with multiple memory modules (e.g., hybrid memory cube (HMC) modules) interconnected with a memory network and our initial evaluation shows that simply off-loading LLT computation to near-memory can actually reduce performance because of the additional off-chip memory network channel traversal. Thus, we first propose NDP-aware data localization to exploit packaging locality - including locality within a single memory module and memory vault - to minimize latency and improve energy efficiency. In order to improve overall throughput and maximize parallelism, we propose batching multiple LLT operations together to amortize the cost of NDP by utilizing the highly parallel execution of NDP processing units and the high bandwidth of 3D stacked DRAM. Our evaluation shows that the combination of NDP-aware data localization and batching can provide significant improvement in performance and energy efficiency.
40 citations
Cites background or methods from "A scalable processing-in-memory acc..."
...Tesseract [3] accelerates graph workloads by applying processingin-memory, where in-order core, prefetcher, and message queue are added to each vault, and memory network is used to transfer the data between memory modules....
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...In Figure 6(d), next[15] is attempted to be relocated to next[3], but fails since next[11] is already relocated to next[3]....
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TL;DR: In this article, an FPGA with high-bandwidth memory (HBM) was used for improving the pre-alignment filtering step of genome analysis and representative kernels from a weather prediction model.
Abstract: Modern data-intensive applications demand high computation capabilities with strict power constraints. Unfortunately, such applications suffer from a significant waste of both execution cycles and energy in current computing systems due to the costly data movement between the computation units and the memory units. Genome analysis and weather prediction are two examples of such applications. Recent FPGAs couple a reconfigurable fabric with high-bandwidth memory (HBM) to enable more efficient data movement and improve overall performance and energy efficiency. This trend is an example of a paradigm shift to near-memory computing. We leverage such an FPGA with high-bandwidth memory (HBM) for improving the pre-alignment filtering step of genome analysis and representative kernels from a weather prediction model. Our evaluation demonstrates large speedups and energy savings over a high-end IBM POWER9 system and a conventional FPGA board with DDR4 memory. We conclude that FPGA-based near-memory computing has the potential to alleviate the data movement bottleneck for modern data-intensive applications.
39 citations
TL;DR: This study focuses on prior art of architecture level DRAM PIM technologies and their implementation and the key challenges and mainstream solutions of PIM are summarized and introduced.
Abstract: The “memory wall” problem or so-called von Neumann bottleneck limits the efficiency of conventional computer architectures, which move data from memory to CPU for computation; these architectures cannot meet the demands of the emerging memory-intensive applications. Processing-in-memory (PIM) has been proposed as a promising solution to break the von Neumann bottleneck by minimizing data movement between memory hierarchies. This study focuses on prior art of architecture level DRAM PIM technologies and their implementation. The key challenges and mainstream solutions of PIM are summarized and introduced. The relative limitations of PIM simulation are discussed, as well as four conventional PIM simulators. Finally, research directions and perspectives are proposed for future development.
39 citations
Posted Content•
TL;DR: This paper surveys the prior art on NMC across various dimensions (architecture, applications, tools, etc.) and identifies the key challenges and open issues with future research directions and provides a glimpse of the approach to near-memory computing.
Abstract: The conventional approach of moving data to the CPU for computation has become a significant performance bottleneck for emerging scale-out data-intensive applications due to their limited data reuse. At the same time, the advancement in 3D integration technologies has made the decade-old concept of coupling compute units close to the memory --- called near-memory computing (NMC) --- more viable. Processing right at the "home" of data can significantly diminish the data movement problem of data-intensive applications.
In this paper, we survey the prior art on NMC across various dimensions (architecture, applications, tools, etc.) and identify the key challenges and open issues with future research directions. We also provide a glimpse of our approach to near-memory computing that includes i) NMC specific microarchitecture independent application characterization ii) a compiler framework to offload the NMC kernels on our target NMC platform and iii) an analytical model to evaluate the potential of NMC.
39 citations
Cites background or methods from "A scalable processing-in-memory acc..."
...[29] focus on graph processing applications....
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...TESSERACT [29] 2015 MM C3D S CPU F A CPU S API Y N Graph processing...
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...have proposed various NMC designs and proved their potential in enhancing performance in many applications [29]–[32]....
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...TESSERACT (2015) Ahn et al. [29] focus on graph processing applications....
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...[29] has used a similar approach for graph processing algorithms....
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TL;DR: This paper proposes SMASH, a hardware-software cooperative mechanism that enables highly-efficient indexing and storage of sparse matrices and devise a novel software encoding based on a hierarchy of bitmaps that can be used to efficiently compress any sparse matrix, regardless of the extent and structure of sparsity.
Abstract: Important workloads, such as machine learning and graph analytics applications, heavily involve sparse linear algebra operations. These operations use sparse matrix compression as an effective means to avoid storing zeros and performing unnecessary computation on zero elements. However, compression techniques like Compressed Sparse Row (CSR) that are widely used today introduce significant instruction overhead and expensive pointer-chasing operations to discover the positions of the non-zero elements. In this paper, we identify the discovery of the positions (i.e., indexing) of non-zero elements as a key bottleneck in sparse matrix-based workloads, which greatly reduces the benefits of compression. We propose SMASH, a hardware-software cooperative mechanism that enables highly-efficient indexing and storage of sparse matrices. The key idea of SMASH is to explicitly enable the hardware to recognize and exploit sparsity in data. To this end, we devise a novel software encoding based on a hierarchy of bitmaps. This encoding can be used to efficiently compress any sparse matrix, regardless of the extent and structure of sparsity. At the same time, the bitmap encoding can be directly interpreted by the hardware. We design a lightweight hardware unit, the Bitmap Management Unit (BMU), that buffers and scans the bitmap hierarchy to perform highly-efficient indexing of sparse matrices. SMASH exposes an expressive and rich ISA to communicate with the BMU, which enables its use in accelerating any sparse matrix computation. We demonstrate the benefits of SMASH on four use cases that include sparse matrix kernels and graph analytics applications.
38 citations
Cites background from "A scalable processing-in-memory acc..."
...Prior works propose a range of hardware-software cooperative mechanisms [4, 5, 11, 28, 36, 60, 73, 76, 80, 81, 84, 85, 95, 100] to accelerate memory-bound operations and can be applied to accelerate sparse matrix computations....
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References
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01 Apr 1998
TL;DR: This paper provides an in-depth description of Google, a prototype of a large-scale search engine which makes heavy use of the structure present in hypertext and looks at the problem of how to effectively deal with uncontrolled hypertext collections where anyone can publish anything they want.
Abstract: In this paper, we present Google, a prototype of a large-scale search engine which makes heavy use of the structure present in hypertext. Google is designed to crawl and index the Web efficiently and produce much more satisfying search results than existing systems. The prototype with a full text and hyperlink database of at least 24 million pages is available at http://google.stanford.edu/. To engineer a search engine is a challenging task. Search engines index tens to hundreds of millions of web pages involving a comparable number of distinct terms. They answer tens of millions of queries every day. Despite the importance of large-scale search engines on the web, very little academic research has been done on them. Furthermore, due to rapid advance in technology and web proliferation, creating a web search engine today is very different from three years ago. This paper provides an in-depth description of our large-scale web search engine -- the first such detailed public description we know of to date. Apart from the problems of scaling traditional search techniques to data of this magnitude, there are new technical challenges involved with using the additional information present in hypertext to produce better search results. This paper addresses this question of how to build a practical large-scale system which can exploit the additional information present in hypertext. Also we look at the problem of how to effectively deal with uncontrolled hypertext collections where anyone can publish anything they want.
14,696 citations
"A scalable processing-in-memory acc..." refers methods in this paper
...Our comprehensive evaluations using five state-of-the-art graph processing workloads with large real-world graphs show that the proposed architecture improves average system performance by a factor of ten and achieves 87% average energy reduction over conventional systems....
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TL;DR: Google as discussed by the authors is a prototype of a large-scale search engine which makes heavy use of the structure present in hypertext and is designed to crawl and index the Web efficiently and produce much more satisfying search results than existing systems.
13,327 citations
TL;DR: This work presents a new coarsening heuristic (called heavy-edge heuristic) for which the size of the partition of the coarse graph is within a small factor of theSize of the final partition obtained after multilevel refinement, and presents a much faster variation of the Kernighan--Lin (KL) algorithm for refining during uncoarsening.
Abstract: Recently, a number of researchers have investigated a class of graph partitioning algorithms that reduce the size of the graph by collapsing vertices and edges, partition the smaller graph, and then uncoarsen it to construct a partition for the original graph [Bui and Jones, Proc. of the 6th SIAM Conference on Parallel Processing for Scientific Computing, 1993, 445--452; Hendrickson and Leland, A Multilevel Algorithm for Partitioning Graphs, Tech. report SAND 93-1301, Sandia National Laboratories, Albuquerque, NM, 1993]. From the early work it was clear that multilevel techniques held great promise; however, it was not known if they can be made to consistently produce high quality partitions for graphs arising in a wide range of application domains. We investigate the effectiveness of many different choices for all three phases: coarsening, partition of the coarsest graph, and refinement. In particular, we present a new coarsening heuristic (called heavy-edge heuristic) for which the size of the partition of the coarse graph is within a small factor of the size of the final partition obtained after multilevel refinement. We also present a much faster variation of the Kernighan--Lin (KL) algorithm for refining during uncoarsening. We test our scheme on a large number of graphs arising in various domains including finite element methods, linear programming, VLSI, and transportation. Our experiments show that our scheme produces partitions that are consistently better than those produced by spectral partitioning schemes in substantially smaller time. Also, when our scheme is used to compute fill-reducing orderings for sparse matrices, it produces orderings that have substantially smaller fill than the widely used multiple minimum degree algorithm.
5,629 citations
"A scalable processing-in-memory acc..." refers methods in this paper
...For this purpose, we use METIS [27] to perform 512-way multi-constraint partitioning to balance the number of vertices, outgoing edges, and incoming edges of each partition, as done in a recent previous work [51]....
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...This is confirmed by the observation that Tesseract with METIS spends 59% of execution time waiting for synchronization barriers....
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12 Jun 2005
TL;DR: The goals are to provide easy-to-use, portable, transparent, and efficient instrumentation, and to illustrate Pin's versatility, two Pintools in daily use to analyze production software are described.
Abstract: Robust and powerful software instrumentation tools are essential for program analysis tasks such as profiling, performance evaluation, and bug detection. To meet this need, we have developed a new instrumentation system called Pin. Our goals are to provide easy-to-use, portable, transparent, and efficient instrumentation. Instrumentation tools (called Pintools) are written in C/C++ using Pin's rich API. Pin follows the model of ATOM, allowing the tool writer to analyze an application at the instruction level without the need for detailed knowledge of the underlying instruction set. The API is designed to be architecture independent whenever possible, making Pintools source compatible across different architectures. However, a Pintool can access architecture-specific details when necessary. Instrumentation with Pin is mostly transparent as the application and Pintool observe the application's original, uninstrumented behavior. Pin uses dynamic compilation to instrument executables while they are running. For efficiency, Pin uses several techniques, including inlining, register re-allocation, liveness analysis, and instruction scheduling to optimize instrumentation. This fully automated approach delivers significantly better instrumentation performance than similar tools. For example, Pin is 3.3x faster than Valgrind and 2x faster than DynamoRIO for basic-block counting. To illustrate Pin's versatility, we describe two Pintools in daily use to analyze production software. Pin is publicly available for Linux platforms on four architectures: IA32 (32-bit x86), EM64T (64-bit x86), Itanium®, and ARM. In the ten months since Pin 2 was released in July 2004, there have been over 3000 downloads from its website.
4,019 citations
"A scalable processing-in-memory acc..." refers methods in this paper
...We evaluate our architecture using an in-house cycle-accurate x86-64 simulator whose frontend is Pin [38]....
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06 Jun 2010
TL;DR: A model for processing large graphs that has been designed for efficient, scalable and fault-tolerant implementation on clusters of thousands of commodity computers, and its implied synchronicity makes reasoning about programs easier.
Abstract: Many practical computing problems concern large graphs. Standard examples include the Web graph and various social networks. The scale of these graphs - in some cases billions of vertices, trillions of edges - poses challenges to their efficient processing. In this paper we present a computational model suitable for this task. Programs are expressed as a sequence of iterations, in each of which a vertex can receive messages sent in the previous iteration, send messages to other vertices, and modify its own state and that of its outgoing edges or mutate graph topology. This vertex-centric approach is flexible enough to express a broad set of algorithms. The model has been designed for efficient, scalable and fault-tolerant implementation on clusters of thousands of commodity computers, and its implied synchronicity makes reasoning about programs easier. Distribution-related details are hidden behind an abstract API. The result is a framework for processing large graphs that is expressive and easy to program.
3,840 citations
"A scalable processing-in-memory acc..." refers methods in this paper
...Our comprehensive evaluations using five state-of-the-art graph processing workloads with large real-world graphs show that the proposed architecture improves average system performance by a factor of ten and achieves 87% average energy reduction over conventional systems....
[...]
...It also includes two hardware prefetchers specialized for memory access patterns of graph processing, which operate based on the hints provided by our programming model....
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