5296162
Performance of object caching for object-oriented systems
12198410
Scalable hardware-algorithm for mark-sweep garbage collection
The memory-intensive nature of object-oriented languages such as C++ and Java has created the need for high-performance dynamic memory management. Object-oriented applications often generate higher memory intensity in the heap region. Thus, a high-performance memory manager is needed to cope with such applications. As today's VLSI technology advances, it becomes increasingly attractive to map software algorithms such as malloc(), free() and garbage collection into hardware. This paper presents a hardware design of a sweeping function (for mark-and-sweep garbage collection) that fully utilizes the advantages of combinational logic. In our scheme, the bit sweep can detect and sweep the garbage in a constant time. Bit-map marking in software can improve the cache performance and reduce number of page faults; however, it often requires several instructions to perform a single mark. In our scheme, only one hardware instruction is required per mark. Moreover, since the complexity of the sweeping phase is often higher than the marking phase, the garbage collection time may be substantially improved. The hardware complexity of the proposed scheme (bit-sweeper) is O(n), where n represents the size of the bit map.
9645285
Using scratchpad to exploit object locality in Java
Performance of modern computers is tied closely to the effective use of cache because of the continually increasing speed discrepancy between processors and main memory. We demonstrate that generational garbage collection employed by a system with cache and scratchpad memory can take advantage of the locality of small short-lived objects in Java and reduce memory traffic by as much as 20% when compared to a cache-only configuration. Converting half of the cache to scratchpad can be more effective at reducing memory traffic than doubling or even quadrupling the size of the cache for several of the applications in SPECjvm98.
18001825
Architectural support for dynamic memory management
Recent advances in software engineering, such as graphical user interfaces and object-oriented programming, have caused applications to become more memory intensive. These applications tend to allocate dynamic memory prolifically. Moreover, automatic dynamic memory reclamation (garbage collection, GC) has become a popular feature in modern programming languages. As a result, the time consumed by dynamic storage management can be up to one-third of the program execution time. This illustrates the need for a high-performance memory management scheme. This paper presents a top-level design and evaluation of the proposed instruction extensions to facilitate heap management.
39527990
FPGA-based reconfigurable computing
1021056
A performance perspective on the Active Memory System
Abstract One major problem of using Java in real-time and embedded devices is the non-deterministic turnaround time of dynamic memory management systems (memory allocation and garbage collection). For the allocation, the non-determinism is often contributed by the time to perform searching, splitting, and coalescing. For the garbage collection, the turnaround time is usually determined by the size of the heap, the number of live objects, the number of object collected, and the amount of garbage collected. Even with the current state-of-the-art garbage collectors (generational and incremental schemes), they may or may not guarantee the worst-case latency. Moreover, such schemes often prolong overall garbage collection time. In this paper, the performance analysis of the proposed Active Memory Module (AMM) for embedded systems is presented. Unlike the software counterparts, the AMM can perform a memory allocation in a predictable and bounded fashion (14 cycles). Moreover, it can also yield a bounded sweeping time regardless of the number of live objects or heap size. By utilizing the proposed system, the overall speedup can be as high as 23% compared to the garbage collection system of the JDK 1.2.2 running in classic mode.
2829100
GAPSCORE: finding gene and protein names one word at a time
MOTIVATION
New high-throughput technologies have accelerated the accumulation of knowledge about genes and proteins. However, much knowledge is still stored as written natural language text. Therefore, we have developed a new method, GAPSCORE, to identify gene and protein names in text. GAPSCORE scores words based on a statistical model of gene names that quantifies their appearance, morphology and context.


RESULTS
We evaluated GAPSCORE against the Yapex data set and achieved an F-score of 82.5% (83.3% recall, 81.5% precision) for partial matches and 57.6% (58.5% recall, 56.7% precision) for exact matches. Since the method is statistical, users can choose score cutoffs that adjust the performance according to their needs.


AVAILABILITY
GAPSCORE is available at http://bionlp.stanford.edu/gapscore/
17166482
Benchmarking the effectiveness of sequential pattern mining methods
Recently, there is an increasing interest in new intelligent mining methods to find more meaningful and compact results. In intelligent data mining research, accessing the quality and usefulness of the results from different mining methods is essential. However, there is no general benchmarking criteria to evaluate whether these new methods are indeed more effective compared to the traditional methods. Here we propose a novel benchmarking criteria that can systematically evaluate the effectiveness of any sequential pattern mining method under a variety of situations. The benchmark evaluates how well a mining method finds known common patterns in synthetic data. Such an evaluation provides a comprehensive understanding of the resulting patterns generated from any mining method empirically. In this paper, the criteria are applied to conduct a detailed comparison study of the support-based sequential pattern model with an approximate pattern model based on sequence alignment. The study suggests that the alignment model will give a good summary of the sequential data in the form of a set of common patterns in the data. In contrast, the support model generates massive amounts of frequent patterns with much redundancy. This suggests that the results of the support model require more post processing before it can be of actual use in real applications.
7532286
Finding recent frequent itemsets adaptively over online data streams
A data stream is a massive unbounded sequence of data elements continuously generated at a rapid rate. Consequently, the knowledge embedded in a data stream is more likely to be changed as time goes by. Identifying the recent change of a data stream, specially for an online data stream, can provide valuable information for the analysis of the data stream. In addition, monitoring the continuous variation of a data stream enables to find the gradual change of embedded knowledge. However, most of mining algorithms over a data stream do not differentiate the information of recently generated transactions from the obsolete information of old transactions which may be no longer useful or possibly invalid at present. This paper proposes a data mining method for finding recent frequent itemsets adaptively over an online data stream. The effect of old transactions on the mining result of the data steam is diminished by decaying the old occurrences of each itemset as time goes by. Furthermore, several optimization techniques are devised to minimize processing time as well as main memory usage. Finally, the proposed method is analyzed by a series of experiments.
17161223
Speculative incoherent cache protocols
Multiprocessing and multithreading are becoming ubiquitous even on single chips. With increasing cache sizes, coherence misses in such systems will account for a larger fraction of all cache misses. As communication latencies increase, this larger fraction of coherence misses will cause significant and increased performance losses. Tuning coherence protocols for specific communication patterns and applications can reduce communication latencies. However, these optimizations increase a protocol's design complexity, making the protocol difficult to verify. A competing approach requires parallel programmers to tune applications to work well with simpler protocols. Speculative execution has successfully improved performance in various scenarios. We propose a new type of load speculation, called coherence decoupling. Coherence decoupling is a microarchitectural mechanism that implements separate protocols for speculative use and for the eventual verification of values. The technique reduces the effect of long communication latencies while mitigating the burdens on the coherence protocol designer and the parallel programmer
17498259
estWin: adaptively monitoring the recent change of frequent itemsets over online data streams
Knowledge embedded in a data stream is likely to be changed as time goes by. Consequently, identifying the recent change of the knowledge quickly can provide valuable information for the analysis of the data stream. However, most of mining algorithms or frequency approximation algorithms for a data stream do not able to extract the recent change of information in a data stream adaptively. This paper proposes a sliding window-based method that finds recently frequent itemsets over an online data stream adaptively. The size of a window defines a desired life-time of the information in a newly generated transaction. Consequently, only recently generated transactions in the range of the window are considered to find the frequent itemsets of a data stream.