Johnson: Computers and Intractability-A Guide to the Theory of NP-Completeness

From the Publisher:
A valuable reference for the novice as well as for the expert who needs a wider scope of coverage within the area of cryptography, this book provides easy and rapid access of information and includes more than 200 algorithms and protocols; more than 200 tables and figures; more than 1,000 numbered definitions, facts, examples, notes, and remarks; and over 1,250 significant references, including brief comments on each paper.

Handbook of Applied Cryptography

ROUGE stands for Recall-Oriented Understudy for Gisting Evaluation. It includes measures to automatically determine the quality of a summary by comparing it to other (ideal) summaries created by humans. The measures count the number of overlapping units such as n-gram, word sequences, and word pairs between the computer-generated summary to be evaluated and the ideal summaries created by humans. This paper introduces four different ROUGE measures: ROUGE-N, ROUGE-L, ROUGE-W, and ROUGE-S included in the ROUGE summarization evaluation package and their evaluations. Three of them have been used in the Document Understanding Conference (DUC) 2004, a large-scale summarization evaluation sponsored by NIST.

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ROUGE: A Package for Automatic Evaluation of Summaries

The proliferation of mobile computing devices and local-area wireless networks has fostered a growing interest in location-aware systems and services. In this paper we present RADAR, a radio-frequency (RF)-based system for locating and tracking users inside buildings. RADAR operates by recording and processing signal strength information at multiple base stations positioned to provide overlapping coverage in the area of interest. It combines empirical measurements with signal propagation modeling to determine user location and thereby enable location-aware services and applications. We present experimental results that demonstrate the ability of RADAR to estimate user location with a high degree of accuracy.

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RADAR: an in-building RF-based user location and tracking system

We describe a new computer program, SnpEff, for rapidly categorizing the effects of variants in genome sequences. Once a genome is sequenced, SnpEff annotates variants based on their genomic locations and predicts coding effects. Annotated genomic locations include intronic, untranslated region, upstream, downstream, splice site, or intergenic regions. Coding effects such as synonymous or non-synonymous amino acid replacement, start codon gains or losses, stop codon gains or losses, or frame shifts can be predicted. Here the use of SnpEff is illustrated by annotating ~356,660 candidate SNPs in ~117 Mb unique sequences, representing a substitution rate of ~1/305 nucleotides, between the Drosophila melanogaster w1118; iso-2; iso-3 strain and the reference y1; cn1 bw1 sp1 strain. We show that ~15,842 SNPs are synonymous and ~4,467 SNPs are non-synonymous (N/S ~0.28). The remaining SNPs are in other categories, such as stop codon gains (38 SNPs), stop codon losses (8 SNPs), and start codon gains (297 SNPs) in...

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3

Introduces DAG (directed acyclic graph) consistency, a relaxed consistency model for distributed shared memory which is suitable for multithreaded programming. We have implemented DAG consistency in software for the Cilk multithreaded runtime system running on a CM5 Connection Machine. Our implementation includes a DAG-consistent distributed cactus stack for storage allocation. We provide empirical evidence of the flexibility and efficiency of DAG consistency for applications that include blocked matrix multiplication, Strassen's (1969) matrix multiplication algorithm and a Barnes-Hut code. Although Cilk schedules the executions of these programs dynamically, their performances are competitive with statically scheduled implementations in the literature. We also prove that the number F/sub P/ of page faults incurred by a user program running an P processors can be related to the number F/sub 1/ of page faults running serially by the formula F/sub P//spl les/F/sub 1/+2Cs, where C is the cache size and s is the number of thread migrations executed by Cilk's scheduler.

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DAG-consistent distributed shared memory

We present an adaptive work-stealing thread scheduler, A-Steal, for fork-join multithreaded jobs, like those written using the Cilk multithreaded language or the Hood work-stealing library. The A-Steal algorithm is appropriate for large parallel servers where many jobs share a common multiprocessor resource and in which the number of processors available to a particular job may vary during the job's execution. A-Steal provides continual parallelism feedback to a job scheduler in the form of processor requests, and the job must adaptits execution to the processors allotted to it. Assuming that the job scheduler never allots any job more processors than requested by thejob's thread scheduler, A-Steal guarantees that the job completes in near-optimal time while utilizing at least a constant fraction of the allotted processors.Our analysis models the job scheduler as the thread scheduler's adversary, challenging the thread scheduler to be robust to the system environment and the job scheduler's administrative policies. We analyze the performance of A-Steal using "trim analysis," which allows us to prove that our thread scheduler performs poorly on at most a small number of time steps, while exhibiting near-optimal behavior on the vast majority. To be precise, suppose that a job has work T1 and span (critical-path length)T∞. On a machine with P processors, A-Steal completes the job in expected O(T1/P + T∞ + L lg P) time steps, where L is the length of a scheduling quantum and P denotes the O(T∞ + L lg P)-trimmed availability. This quantity is the average of the processor availability over all but the O(T∞ + L lg P)time steps having the highest processor availability. When the job's parallelism dominates the trimmed availability, that is, P « T1/T∞, the job achieves nearly perfect linear speedup. Conversely, when the trimmed mean dominates the parallelism, the asymptotic running time of the job is nearly its span.

/pdf/adaptive-work-stealing-with-parallelism-feedback-42e49jv975.pdf

Adaptive work stealing with parallelism feedback

This paper describes and analyzes several algorithms for constructing systolic array networks from cells on a silicon wafer. Some of the cells may be defective, and thus the networks must be configured to avoid them. We adopt a probabilistic model of cell failure, and attempt to construct networks whose maximum wire length is minimal Although the algorithms presented are designed principally for application to the wafer-scale integration of one and two-dimensional systolic arrays, they can also be used to construct networks in well studied models of geometric complexity. Some of the algorithms are of considerable practical interest.

Wafer-scale integration of systolic arrays

It is our view that the state of the art in constructing a large collection of graph algorithms in terms of linear algebraic operations is mature enough to support the emergence of a standard set of primitive building blocks. This paper is a position paper defining the problem and announcing our intention to launch an open effort to define this standard.

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Charles E. Leiserson

Papers

DAG-consistent distributed shared memory

Adaptive work stealing with parallelism feedback

Wafer-scale integration of systolic arrays

Standards for graph algorithm primitives

Introduction to Algorithms -3/Ed.