Table of Contents

• A SIMD Solution for the Quadratic Assignment Problem with GPU AccelerationAbhilash Chaparala, Clara Novoa, Apan Qasem. 1 [doi]
• Academic Torrents: A Community-Maintained Distributed RepositoryJoseph Paul Cohen, Henry Z. Lo. 2 [doi]
• Accelerating Ab Initio Nucleon Structure Calculations with All-Mode-Averaging on GordonMeifeng Lin, Yasumichi Aoki, Thomas Blum, Taku Izubuchi, Chulwoo Jung, Shigemi Ohta, Eigo Shintani, Takeshi Yamazaki, Shoichi Sasaki. 3 [doi]
• Accelerating Sparse Canonical Correlation Analysis for Large Brain Imaging Genetics DataJingwen Yan, Hui Zhang 0006, Lei Du, Eric Wernert, Andrew J. Saykin, Li Shen. 4 [doi]
• Accelerating TauDEM as a Scalable Hydrological Terrain Analysis Service on XSEDEYe Fan, Yan Liu 0009, Shaowen Wang, David Tarboton, Ahmet Yildirim, Nancy Wilkins-Diehr. 5 [doi]
• Advanced Application Support for Improved GPU Utilization on KeenelandJeffrey Young, M. Graham Lopez, Mitchel D. Horton, Richard Glassbrook, Jeffrey S. Vetter. 6 [doi]
• An Integrated Analytic Pipeline for Identifying and Predicting Genetic Interactions based on Perturbation Data from High Content Double RNAi ScreeningZheng Yin, Fuhai Li, Stephen T. C. Wong. 7 [doi]
• Applying Lessons from e-Discovery to Process Big Data using HPCSukrit Sondhi, Ritu Arora. 8 [doi]
• Large-scale Hydrodynamic Brownian Simulations on Multicore and GPU ArchitecturesM. Graham Lopez, Mitchel D. Horton, Edmond Chow. 9 [doi]
• Calculation of Sensitivity Coefficients for Individual Airport Emissions in the Continental U.S. using CMAQ-DDM/PMScott Boone, Saravanan Arunachalam. 10 [doi]
• Challenges in particle tracking in turbulence on a massive scaleD. Buaria, P.-K. Yeung. 11 [doi]
• Detailed computational modeling of laminar and turbulent sooting flamesAdhiraj Dasgupta, Somesh Roy, Daniel C. Haworth. 12 [doi]
• ECSS Experience: Particle Tracing ReinventedCarlos Rosales, Robert McLay. 13 [doi]
• Efficient 3D Movement-Based Kernel Density Estimator and Application to Wildlife EcologyJeff A. Tracey, James K. Sheppard, Glenn K. Lockwood, Amit Chourasia, Mahidhar Tatineni, Robert N. Fisher, Robert S. Sinkovits. 14 [doi]
• Performance Study of a Minimalistic Simulator on XSEDE Massively Parallel SystemsRong Rong, Jiang Hao, Jason Liu. 15 [doi]
• Fast, Low-Memory Algorithm for Construction of Nanosecond Level Snapshots of Financial MarketsRobert S. Sinkovits, Tao Feng, Mao Ye. 16 [doi]
• FeatureSelector: an XSEDE-Enabled Tool for Massive Game Log AnalysisY. Dora Cai, Bettina Cassandra Riedl, Rabindra Robby Ratan, Cuihua Shen, Arnold Picot. 17 [doi]
• Highly Energetic Collisions of Xe with Fullerene ClustersDulma Nugawela, Steven J. Stuart, Jacek Jakowski. 18 [doi]
• Instrumenting Genomic Sequence Analysis Pipeline Mothur on Shared Memory ArchitectureJunqi Yin, Bhanu Rekepalli, Pragneshkumar Patel, Chanda Drennen, Annette Summers Engel. 19 [doi]
• Large-scale Sequencing and Assembly of Cereal Genomes Using BlacklightPhilip D. Blood, Shoshana Marcus, Michael C. Schatz. 20 [doi]
• MOVIE: Large Scale Automated Analysis of MOVing ImagEsVirginia Kuhn, Michael Simeone, Luigi Marini, Dave Bock, Alan B. Craig, Liana Diesendruck, Sandeep Puthanveetil Satheesan. 21 [doi]
• MS-FLUKSS and Its Application to Modeling Flows of Partially Ionized Plasma in the HeliosphereNikolai V. Pogorelov, Sergey Borovikov, Jacob Heerikhuisen, Tae Kim, Igor A. Kryukov, Gary Zank. 22 [doi]
• Photoionization of Ne8+M. S. Pindzola, Sh. A. Abdel-Naby, C. P. Ballance. 23 [doi]
• The hybrid Quantum Trajectory/Electronic Structure DFTB-based approach to Molecular DynamicsLei Wang, James W. Mazzuca, Sophya Garashchuk, Jacek Jakowski. 24 [doi]
• Towards a Scientific Impact Measuring Framework for Large Computing Facilities - a Case Study on XSEDEFugang Wang, Gregor von Laszewski, Geoffrey Charles Fox, Thomas R. Furlani, Robert L. DeLeon, Steven M. Gallo. 25 [doi]
• Towards Efficient Direct Semiclassical Molecular Dynamics for Complex Molecular SystemsYu Zhuang, Michele Ceotto, William L. Hase. 26 [doi]
• Using SAGA and the Open Science Grid to Search for AptamersKevin Shieh, Pilib Ó Broin, David Rhee, Matthew Levy, Aaron Golden. 27 [doi]
• XSEDE OpenACC workshop enables Blue Waters Researchers to Accelerate Key AlgorithmsGalen Arnold, Manisha Gajbe, Seid Koric, John Urbanic. 28 [doi]
• XSEDE Support: Revolutionizing the Next-Generation Therapeutic Drug DiscoveryBhanu Rekepalli, Yuri K. Peterson. 29 [doi]
• A leap forward with UTK's Cray XC30Mark R. Fahey. 30 [doi]
• An Analysis of Node Sharing on HPC Clusters using XDMoD/TACC_StatsJoseph P. White, Robert L. DeLeon, Thomas R. Furlani, Steven M. Gallo, Matthew D. Jones, Amin Ghadersohi, Cynthia D. Cornelius, Abani K. Patra, James C. Browne, William L. Barth, John Hammond. 31 [doi]
• Benchmarking SSD-Based Lustre File System ConfigurationsRick Mohr, Paul Peltz Jr.. 32 [doi]
• Benefits of Cross Memory Attach for MPI libraries on HPC ClustersJérôme Vienne. 33 [doi]
• Best Practices for Administering a Medium Sized Cluster with Intel® Xeon Phi™ CoprocessorsPaul Peltz Jr., Troy Baer. 34 [doi]
• Building an Information System for a Distributed TestbedWarren Smith, Shava Smallen. 35 [doi]
• Data Management Practices on Large-Scale Lustre Scratch File SystemsGary L. Rogers Jr., Jesse Hanley, Rick Mohr. 36 [doi]
• Descriptive Data Analysis of File Transfer DataSudarshan Srinivasan, Victor Hazlewood, Gregory D. Peterson. 37 [doi]
• Evaluating Distributed Platforms for Protein-Guided Scientific WorkflowNatasha Pavlovikj, Kevin Begcy, Sairam Behera, Malachy Campbell, Harkamal Walia, Jitender S. Deogun. 38 [doi]
• Gateways to Discovery: Cyberinfrastructure for the Long Tail of ScienceRichard Lee Moore, Chaitan Baru, Diane Baxter, Geoffrey Charles Fox, Amit Majumdar, Phillip Papadopoulos, Wayne Pfeiffer, Robert S. Sinkovits, Shawn Strande, Mahidhar Tatineni, Richard P. Wagner, Nancy Wilkins-Diehr, Michael L. Norman. 39 [doi]
• Launcher: A Shell-based Framework for Rapid Development of Parallel Parametric StudiesLucas A. Wilson, John M. Fonner. 40 [doi]
• On Automating XSEDE User Ticket ClassificationGwang Son, Victor Hazlewood, Gregory D. Peterson. 41 [doi]
• pbsacct: A Workload Analysis System for PBS-Based HPC SystemsTroy Baer, Doug Johnson. 42 [doi]
• Performance of Applications using Dual-Rail InfiniBand 3D Torus network on the Gordon SupercomputerDong Ju Choi, Glenn K. Lockwood, Robert S. Sinkovits, Mahidhar Tatineni. 43 [doi]
• PGDB: A Debugger for MPI ApplicationsNikoli Dryden. 44 [doi]
• Runtime Pipeline Scheduling System for Heterogeneous ArchitecturesJulio C. Olaya, Rodrigo A. Romero. 45 [doi]
• Slices: Provisioning Heterogeneous HPC SystemsAlexander Merritt, Naila Farooqui, Magdalena Slawiñska, Ada Gavrilovska, Karsten Schwan, Vishakha Gupta. 46 [doi]
• SR-IOV: Performance Benefits for Virtualized InterconnectsGlenn K. Lockwood, Mahidhar Tatineni, Rick Wagner. 47 [doi]
• The Oklahoma PetaStore: A Business Model for Big Data on a Small BudgetS. Patrick Calhoun, David Akin, Joshua Alexander, Brett Zimmerman, Fred Keller, Brandon George, Henry Neeman. 48 [doi]
• The OneOklahoma Friction Free Network: Towards a Multi-Institutional Science DMZ in an EPSCoR StateHenry Neeman, David Akin, Joshua Alexander, Dana Brunson, S. Patrick Calhoun, James Deaton, Franklin Fondjo Fotou, Brandon George, Debi Gentis, Zane Gray, Eddie Huebsch, George Louthan, Matt Runion, Joel Snow, Brett Zimmerman. 49 [doi]
• Workload Aware Utilization Optimization for a Petaflop Supercomputer: Evidence Based Assessment Using Statistical MethodsFei Xing, Haihang You. 50 [doi]
• A Tool for Interactive ParallelizationRitu Arora, Julio Olaya, Madhav Gupta. 51 [doi]
• Accessible Parallelization for the Open Modeling InterfaceTom Bulatewicz, Daniel Andresen. 52 [doi]
• An Open Extensible Multi-Target Application Generation Tool for Simple Rapid Deployment of Multi-Scale Scientific CodesEmre H. Brookes. 53 [doi]
• Computational Anatomy Gateway: Leveraging XSEDE Computational Resources for Shape AnalysisSaurabh Jain, Daniel Jacob Tward, David S. Lee, Anthony Kolasny, Timothy Brown, J. Tilak Ratnanather, Michael I. Miller, Laurent Younes. 54 [doi]
• Dynamically Provisioning Portable Gateway Infrastructure Using Docker and AgaveRion Dooley, Joe Stubbs. 55 [doi]
• HPC Simulation Workflows for Engineering InnovationMark S. Shephard, Cameron W. Smith. 56 [doi]
• Incorporating Job Predictions into the SEAGrid Science GatewayYe Fan, Sudhakar Pamidighantam, Warren Smith. 57 [doi]
• Integrating Science Gateways with XSEDE Security: A Survey of Credential Management ApproachesJim Basney, Jeff Gaynor, Suresh Marru, Marlon E. Pierce, Thejaka Amila Kanewala, Rion Dooley, Joe Stubbs. 58 [doi]
• Leveraging XSEDE HPC resources to address computational challenges with high-resolution topography dataChoonhan Youn, Viswanath Nandigam, Minh Phan, David Tarboton, Nancy Wilkins-Diehr, Chaitan Baru, Christopher J. Crosby, Anand Padmanabhan, Shaowen Wang. 59 [doi]
• Once you SCOOP, no need to forkYannick Hold-Geoffroy, Olivier Gagnon, Marc Parizeau. 60 [doi]
• Performance Improvement and Workflow Development of Virtual Diffraction CalculationsShawn P. Coleman, Sudhakar Pamidighantam, Mark Van Moer, Yang Wang, Lars Koesterke, Douglas E. Spearot. 61 [doi]
• Statistical Performance Analysis for Scientific ApplicationsFei Xing, Haihang You, Charng-da Lu. 62 [doi]
• TextRWeb: Large-Scale Text Analytics with R on the WebGuangchen Ruan, Hui Zhang 0006, Eric Wernert, Beth Plale. 63 [doi]
• UNICORE in XSEDE: Through Development, Integration, Deployment and beyondTabitha K. Samuel, Shahbaz Memon, Bernd Scheuller, Shava Smallen. 64 [doi]
• XRAS: Allocations software as a service in XSEDEDavid L. Hart, Amy Schuele, Ester Soriano, Maytal Dahan, Matthew Hanlon. 65 [doi]
• A Three-Semester, Interdisciplinary Approach to Parallel Programming in a Liberal Arts University SettingMike Morris, Karl Frinkle. 66 [doi]
• An Introductory Course on Modeling and SimulationDavid Toth, Jeffrey Solka. 67 [doi]
• Architecting an autograder for parallel codeRazvan Carbunescu, Aditya Devarakonda, James Demmel, Steven I. Gordon, Jay Alameda, Susan Mehringer. 68 [doi]
• Clash of the Timelines: Lessons Learned from the Front Lines of CS EducationDiane Baxter, Beth Simon. 69 [doi]
• DNA Subway: Making Genome Analysis EgalitarianUwe Hilgert, Sheldon McKay, Mohammed Khalfan, Jason Williams, Cornel Ghiban, David Micklos. 70 [doi]
• iCER Interns: Engaging Undergraduates in High Performance ComputingDirk Colbry. 71 [doi]
• Integrating Performance Measurement and Program Evaluation to Promote UnderstandingLorna Rivera, Lizanne DeStefano. 72 [doi]
• LittleFe and BCCD as a successful on-ramp to HPCIvan Babic, Aaron Weeden, Mobeen Ludin, Skylar Thompson, Charles Peck, Kristin Muterspaw, Andrew Fitz Gibbon, Jennifer Houchins, Tom Murphy. 73 [doi]
• Methods For Creating XSEDE Compatible ClustersJeremy Fischer, Richard Knepper, Matthew Standish, Craig A. Stewart, Resa Alvord, David Lifka, Barbara Hallock, Victor Hazlewood. 74 [doi]
• Minimum Time, Maximum Effect: Introducing Parallel Computing in CS0 and STEM Outreach Activities Using ScratchRussell Feldhausen, Scott Bell, Daniel Andresen. 75 [doi]
• Revision Control System (RCS) in computational sciences and engineering curriculumGowtham S.. 76 [doi]
• XSEDE Campus Bridging Pilot Case StudyBarbara Hallock, Richard Knepper, James Ferguson, Craig A. Stewart. 77 [doi]