Engineering Commons^™

Clustering And Classification Of Multi-Domain Proteins, Neethu Shah

Department of Computer Science and Engineering: Dissertations, Theses, and Student Research

Rapid development of next-generation sequencing technology has led to an unprecedented growth in protein sequence data repositories over the last decade. Majority of these proteins lack structural and functional characterization. This necessitates design and development of fast, efficient, and sensitive computational tools and algorithms that can classify these proteins into functionally coherent groups.

Domains are fundamental units of protein structure and function. Multi-domain proteins are extremely complex as opposed to proteins that have single or no domains. They exhibit network-like complex evolutionary events such as domain shuffling, domain loss, and domain gain. These events therefore, cannot be represented in the …

Solving The Search For Source Code, Kathryn T. Stolee

Department of Computer Science and Engineering: Dissertations, Theses, and Student Research

Programmers frequently search for source code to reuse using keyword searches. When effective and efficient, a code search can boost programmer productivity, however, the search effectiveness depends on the programmer's ability to specify a query that captures how the desired code may have been implemented. Further, the results often include many irrelevant matches that must be filtered manually. More semantic search approaches could address these limitations, yet existing approaches either do not scale, are not flexible enough to find approximate matches, or require complex specifications.

We propose a novel approach to semantic search that addresses some of these limitations and …

Vsfs: A Versatile Searchable File System For Hpc Analytics, Lei Xu, Ziling Huang, Hong Jiang, Lei Tian, David Swanson

CSE Technical Reports

Big-data/HPC analytics applications have urgent needs for file-search services to drastically reduce the scale of the input data to accelerate analytics. Unfortunately, the existing solutions either are poorly scalable for large-scale systems, or lack well-integrated interface to allow applications to easily use them. We propose a distributed searchable file system, VSFS, which provide a novel and flexible POSIX-compatible searchable file system namespace that can be seamlessly integrate with any legacy code without modification. Additionally, to provide real-time indexing and searching performance, VSFS uses DRAM-based distributed consistent hashing ring to manages all file-index. The results of our evaluation show that VSFS …

Energy-Efficient Failure Recovery In Hadoop Cluster, Weiyue Xu

Department of Computer Science and Engineering: Dissertations, Theses, and Student Research

Based on U.S. Environmental Protection Agency’s estimation, only in U.S., billions of dollars are spent on the electricity cost of data centers each year, and the cost is continually increasing very quickly. Energy efficiency is now used as an important metric for evaluating a computing system. However, saving energy is a big challenge due to many constraints. For example, in one of the most popular distributed processing frameworks, Hadoop, three replicas of each data block are randomly distributed in order to improve performance and fault tolerance, but such a mechanism limits the largest number of machine that can be turned …

Fea Estimation And Experimental Validation Of Solid Rotor And Magnet Eddy Current Loss In Single-Sided Axial Flux Permanent Magnet Machines, Xu Yang, Dean Patterson, Jerry Hudgins, Jessica Colton

Department of Electrical and Computer Engineering: Faculty Publications

The rotor and magnet loss in single-sided axial flux permanent magnet machines with non-overlapped windings is studied in this paper. FEA estimations of the loss are carried out using both 2-D and 3-D modeling. The rotor and magnet losses are determined separately for stator slot passing and MMF space harmonics from currents in the stator. The segregation of loss between the solid rotor plate and the magnet is addressed. The eddy current loss reduction by magnet segments is discussed as well. The prototype 24 slot/22 pole single-sided AFPMs, fabricated with both single layer and double layer windings are assembled. Methods …

Human Performance Regression Testing, Amanda Swearngin, Myra B. Cohen, Bonnie E. John, Rachel K. E. Bellamy

CSE Conference and Workshop Papers

As software systems evolve, new interface features such as keyboard shortcuts and toolbars are introduced. While it is common to regression test the new features for functional correctness, there has been less focus on systematic regression testing for usability, due to the effort and time involved in human studies. Cognitive modeling tools such as CogTool provide some help by computing predictions of user performance, but they still require manual effort to describe the user interface and tasks, limiting regression testing efforts. In recent work, we developed CogTool-Helper to reduce the effort required to generate human performance models of existing systems. …