17900842
Fast cache access with full-map block directory
There are two concurrent paths in a typical cache access -one through the data array and the other through the tag array. In most cases, the path through the tag array is significantly longer than that through the data array. In this paper, we propose a new scheme that exploits this imbalance in the tag and data paths to improve overall cache performance. Under this scheme, an additional tag directory, the full-map block directory, is used to provide an alternate tag path to speed up cache access for almost all the memory requests. This scheme is based on the observation that spatial locality exists on a cache line basis i.e. cache lines near one another tend to be referenced together. Performance evaluation using the TPC-C benchmark and the SPEC92 benchmark suite demonstrates that this scheme has the potential to improve overall system performance by more than 20%.
2578042
Trustworthy keyword search for regulatory-compliant records retention
Recent litigation and intense regulatory focus on secure retention of electronic records have spurred a rush to introduce Write-Once-Read-Many (WORM) storage devices for retaining business records such as electronic mail. However, simply storing records in WORM storage is insuffcient to ensure that the records are trustworthy, i.e., able to provide irrefutable proof and accurate details of past events. Specifically, some form of index is needed for timely access to the records, but unless the index is maintained securely, the records can in effect be hidden or altered, even if stored in WORM storage. In this paper, we systematically analyze the requirements for establishing a trustworthy inverted index to enable keyword-based search queries. We propose a novel scheme for effcient creation of such an index and demonstrate, through extensive simulations and experiments with an enterprise keyword search engine, that the scheme can achieve online update speeds while maintaining good query performance. In addition, we present a secure index structure for multi-keyword queries that supports insert, lookup and range queries in time logarithmic in the number of documents.
308038
Projecting the performance of decision support workloads on systems with smart storage (SmartSTOR)
Recent developments in both hardware and software have made it worthwhile to consider embedding intelligence in storage to handle general-purpose processing that can be off-loaded from the hosts. In particular, low-cost processing power is now widely available and software can be made robust, secure and mobile. In this paper, we propose a general smart storage (SmartSTOR) architecture in which a processing unit that is coupled to one or more disks can be used to perform such off-loaded processing. A major part of the paper is devoted to understanding the performance potential of the SmartSTOR architecture for decision support workloads. Our analysis suggests that there is a definite performance advantage in using fewer but more powerful processors, a result that bolsters the case for sharing a powerful processor among multiple disks. As for software architecture, we find that the off-loading of database operations that involve only a single relation is not very promising. In order to achieve significant speed-up, we have to consider the off-loading of multiple-relation operations. In general, if embedding intelligence in storage is an inevitable architectural trend, we have to focus on developing parallel software systems that can effectively take advantage of the large number of processing units that will be in the system.
6036700
Functional Implementation Techniques for CPU Cache Memories
As the performance gap between processors and main memory continues to widen, increasingly aggressive implementations of cache memories are needed to bridge the gap. In this paper, we consider some of the issues that are involved in the implementation of highly optimized cache memories and survey the techniques that can be used to help achieve the increasingly stringent design targets and constraints of modern processors. In particular, we consider techniques that enable the cache to be accessed quickly and still achieve a good hit ratio. We also consider issues such as area cost and bandwidth requirements. Trace-driven simulations of a TPC-C-like workload and selected applications from the SPEC95 benchmark suite are used in the paper to compare the performance of some of the techniques.
10542450
Capturing dynamic memory reference behavior with adaptive cache topology
Memory references exhibit locality and are therefore not uniformly distributed across the sets of a cache. This skew reduces the effectiveness of a cache because it results in the caching of a considerable number of less-recently-used lines which are less likely to be re-referenced before they are replaced. In this paper, we describe a technique that dynamically identifies these less-recently-used lines and effectively utilizes the cache frames they occupy to more accurately approximate the global least-recently-used replacement policy while maintaining the fast access time of a direct-mapped cache. We also explore the idea of using these underutilized cache frames to reduce cache misses through data prefetching. In the proposed design, the possible locations that a line can reside in is not predetermined. Instead, the cache is dynamically partitioned into groups of cache lines. Because both the total number of groups and the individual group associativity adapt to the dynamic reference pattern, we call this design the adaptive group-associative cache. Performance evaluation using trace-driven simulations of the TPC-C benchmark and selected programs from the SPEC95 benchmark suite shows that the group-associative cache is able to achieve a hit ratio that is consistently better than that of a 4-way set-associative cache. For some of the workloads, the hit ratio approaches that of a fully-associative cache.
14423694
Characteristics of I/O traffic in personal computer and server workloads
Understanding the characteristics of I/O traffic is increasingly important as the performance gap between the processor and disk-based storage continues to widen. Moreover, recent advances in technology, coupled with market demands, have led to new and exciting developments in storage systems, particularly network storage, storage utilities, and intelligent self-optimizing storage. In this paper, we empirically examine the physical I/O traffic of a wide range of server and personal computer (PC) workloads, focusing on how these workloads will be affected by the recent developments in storage systems. As part of our analysis, we compare our results with historical data and re-examine some rules of thumb (e.g., one bit of I/O per second for each instruction per second of processing power) that have been widely used for designing computer systems. We find that the I/O traffic is bursty and appears to exhibit self-similar characteristics. Our analysis also indicates that there is little cross-correlation between traffic volumes of server workloads, which suggests that aggregating these workloads will likely help to smooth out the traffic and enable more efficient utilization of resources. We discover that there is significant potential for harnessing "free" system resources to perform background tasks such as optimization of disk block layout. In general, we observe that the characteristics of the I/O traffic are relatively insensitive to the extent of upstream caching, and thus our results still apply, on a qualitative level, when the upstream cache is increased in size.
7586483
Video search reranking via information bottleneck principle
We propose a novel and generic video/image reranking algorithm, IB reranking, which reorders results from text-only searches by discovering the salient visual patterns of relevant and irrelevant shots from the approximate relevance provided by text results. The IB reranking method, based on a rigorous Information Bottleneck (IB) principle, finds the optimal clustering of images that preserves the maximal mutual information between the search relevance and the high-dimensional low-level visual features of the images in the text search results. Evaluating the approach on the TRECVID 2003-2005 data sets shows significant improvement upon the text search baseline, with relative increases in average performance of up to 23%. The method requires no image search examples from the user, but is competitive with other state-of-the-art example-based approaches. The method is also highly generic and performs comparably with sophisticated models which are highly tuned for specific classes of queries, such as named-persons. Our experimental analysis has also confirmed the proposed reranking method works well when there exist sufficient recurrent visual patterns in the search results, as often the case in multi-source news videos.
16227528
Fast image retrieval using color-spatial information
Abstract. In this paper, we present an image retrieval system that employs both the color and spatial information of images to facilitate the retrieval process. The basic unit used in our technique is a single-colored cluster, which bounds a homogeneous region of that color in an image. Two clusters from two images are similar if they are of the same color and overlap in the image space. The number of clusters that can be extracted from an image can be very large, and it affects the accuracy of retrieval. We study the effect of the number of clusters on retrieval effectiveness to determine an appropriate value for “optimal'' performance. To facilitate efficient retrieval, we also propose a multi-tier indexing mechanism called the Sequenced Multi-Attribute Tree (SMAT). We implemented a two-tier SMAT, where the first layer is used to prune away clusters that are of different colors, while the second layer discriminates clusters of different spatial locality. We conducted an experimental study on an image database consisting of 12,000 images. Our results show the effectiveness of the proposed color-spatial approach, and the efficiency of the proposed indexing mechanism.
32109322
RIBRA-An Error-Tolerant Algorithm for the NMR Backbone Assignment Problem
We develop an iterative relaxation algorithm, called RIBRA, for NMR protein backbone assignment. RIBRA applies nearest neighbor and weighted maximum independent set algorithms to solve the problem. To deal with noisy NMR spectral data, RIBRA is executed in an iterative fashion based on the quality of spectral peaks. We first produce spin system pairs using the spectral data without missing peaks, then the data group with one missing peak, and finally, the data group with two missing peaks. We test RIBRA on two real NMR datasets: hb-SBD and hbLBD, and perfect BMRB data (with 902 proteins) and four synthetic BMRB data which simulate four kinds of errors. The accuracy of RIBRA on hbSBD and hbLBD are 91.4% and 83.6%, respectively. The average accuracy of RIBRA on perfect BMRB datasets is 98.28%, and 98.28%, 95.61%, 98.16% and 96.28% on four kinds of synthetic datasets, respectively.
14566859
Various criteria in the evaluation of biomedical named entity recognition
BackgroundText mining in the biomedical domain is receiving increasing attention. A key component of this process is named entity recognition (NER). Generally speaking, two annotated corpora, GENIA and GENETAG, are most frequently used for training and testing biomedical named entity recognition (Bio-NER) systems. JNLPBA and BioCreAtIvE are two major Bio-NER tasks using these corpora. Both tasks take different approaches to corpus annotation and use different matching criteria to evaluate system performance. This paper details these differences and describes alternative criteria. We then examine the impact of different criteria and annotation schemes on system performance by retesting systems participated in the above two tasks.ResultsTo analyze the difference between JNLPBA's and BioCreAtIvE's evaluation, we conduct Experiment 1 to evaluate the top four JNLPBA systems using BioCreAtIvE's classification scheme. We then compare them with the top four BioCreAtIvE systems. Among them, three systems participated in both tasks, and each has an F-score lower on JNLPBA than on BioCreAtIvE. In Experiment 2, we apply hypothesis testing and correlation coefficient to find alternatives to BioCreAtIvE's evaluation scheme. It shows that right-match and left-match criteria have no significant difference with BioCreAtIvE. In Experiment 3, we propose a customized relaxed-match criterion that uses right match and merges JNLPBA's five NE classes into two, which achieves an F-score of 81.5%. In Experiment 4, we evaluate a range of five matching criteria from loose to strict on the top JNLPBA system and examine the percentage of false negatives. Our experiment gives the relative change in precision, recall and F-score as matching criteria are relaxed.ConclusionIn many applications, biomedical NEs could have several acceptable tags, which might just differ in their left or right boundaries. However, most corpora annotate only one of them. In our experiment, we found that right match and left match can be appropriate alternatives to JNLPBA and BioCreAtIvE's matching criteria. In addition, our relaxed-match criterion demonstrates that users can define their own relaxed criteria that correspond more realistically to their application requirements.
38774895
Fast Algorithms for the Dominating Set Problem on Permutation Graphs
AnO(n log logn) (resp.O(n2 log2n)) algorithm is presented to solve the minimum cardinality (resp. weight) dominating set problem on permutation graphs, assuming the input is a permutation. The best-known previous algorithm was given by FArber and Keil, where they use dynamic programming to get anO(n2 (resp.O(n3)) algorithm. Our improvement is based on the following three factors: (1) an observation on the order among the intermediate terms in the dynamic programming, (2) a new construction formula for the intermediate terms, and (3) efficient data structures for manipulating these terms.