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2014 IEEE 28th International Parallel and Distributed Processing Symposium, Phoenix, AZ, USA, May 19-23, 2014. IEEE Computer Society 2014, ISBN 978-1-4799-3799-8

Keynote Speaker 1

Yutong Lu:
Scalability-Centric HPC System Design. 3

Session 1: Algorithms for Resource Management and Awareness

Henri Casanova, Lipyeow Lim, Yves Robert, Frédéric Vivien, Dounia Zaidouni:
Cost-Optimal Execution of Boolean Query Trees with Shared Streams. 7-16
Matthias Rost, Stefan Schmid, Anja Feldmann:
It's About Time: On Optimal Virtual Network Embeddings under Temporal Flexibilities. 17-26
Mehmet Deveci, Sivasankaran Rajamanickam, Vitus J. Leung, Kevin T. Pedretti, Stephen L. Olivier, David P. Bunde, Ümit V. Çatalyürek, Karen D. Devine:
Exploiting Geometric Partitioning in Task Mapping for Parallel Computers. 27-36
Moshe Gabel, Assaf Schuster, Daniel Keren:
Communication-Efficient Distributed Variance Monitoring and Outlier Detection for Multivariate Time Series. 37-47

Session 2: Big Data Processing

Huayong Wang, Li-Shiuan Peh:
MobiStreams: A Reliable Distributed Stream Processing System for Mobile Devices. 51-60
Devesh Tiwari, Yan Solihin:
MapReuse: Reusing Computation in an In-Memory MapReduce System. 61-71
Mücahid Kutlu, Gagan Agrawal:
PAGE: A Framework for Easy PArallelization of GEnomic Applications. 72-81
Marcelo Veiga Neves, César A. F. De Rose, Kostas Katrinis, Hubertus Franke:
Pythia: Faster Big Data in Motion through Predictive Software-Defined Network Optimization at Runtime. 82-90

Session 3: GPU

Yi Yang, Ping Xiang, Michael Mantor, Norman Rubin, Lisa R. Hsu, Qunfeng Dong, Huiyang Zhou:
A Case for a Flexible Scalar Unit in SIMT Architecture. 93-102
Ayse Yilmazer, Zhongliang Chen, David R. Kaeli:
Scalar Waving: Improving the Efficiency of SIMD Execution on GPUs. 103-112
Yuki Abe, Hiroshi Sasaki, Shinpei Kato, Koji Inoue, Masato Edahiro, Martin Peres:
Power and Performance Characterization and Modeling of GPU-Accelerated Systems. 113-122
Ivan Grasso, Petar Radojkovic, Nikola Rajovic, Isaac Gelado, Alex Ramírez:
Energy Efficient HPC on Embedded SoCs: Optimization Techniques for Mali GPU. 123-132

Session 4: I/O, Storage, and Networking

Bogdan Nicolae, Pierre Riteau, Kate Keahey:
Bursting the Cloud Data Bubble: Towards Transparent Storage Elasticity in IaaS Clouds. 135-144
Jian Huang, Xuechen Zhang, Greg Eisenhauer, Karsten Schwan, Matthew Wolf, Stéphane Ethier, Scott Klasky:
Scibox: Online Sharing of Scientific Data via the Cloud. 145-154
Matthieu Dorier, Gabriel Antoniu, Robert B. Ross, Dries Kimpe, Shadi Ibrahim:
CALCioM: Mitigating I/O Interference in HPC Systems through Cross-Application Coordination. 155-164
Marc Casas, Greg Bronevetsky:
Active Measurement of the Impact of Network Switch Utilization on Application Performance. 165-174

Session 5: Multi-core Algorithms

Bryan C. Ward, James H. Anderson:
Multi-resource Real-Time Reader/Writer Locks for Multiprocessors. 177-186
Ahmed Hassan, Roberto Palmieri, Binoy Ravindran:
Remote Invalidation: Optimizing the Critical Path of Memory Transactions. 187-197
Haim Avron, Alex Druinsky, Anshul Gupta:
Revisiting Asynchronous Linear Solvers: Provable Convergence Rate through Randomization. 198-207
Benjamin S. Parsons, Vijay S. Pai:
Accelerating MPI Collective Communications through Hierarchical Algorithms Without Sacrificing Inter-Node Communication Flexibility. 208-218

Session 6: Computational Biology

Boyu Zhang, Trilce Estrada, Pietro Cicotti, Michela Taufer:
Enabling In-Situ Data Analysis for Large Protein-Folding Trajectory Datasets. 221-230
Gregory M. Striemer, Harsha Krovi, Ali Akoglu, Benjamin Vincent, Ben Hopson, Jeffrey Frelinger, Adam Buntzman:
Overcoming the Limitations Posed by TCR-beta Repertoire Modeling through a GPU-Based In-Silico DNA Recombination Algorithm. 231-240
Sanchit Misra, Kiran Pamnany, Srinivas Aluru:
Parallel Mutual Information Based Construction of Whole-Genome Networks on the Intel (R) Xeon Phi (TM) Coprocessor. 241-250
Jing Zhang, Hao Wang, Heshan Lin, Wu-chun Feng:
cuBLASTP: Fine-Grained Parallelization of Protein Sequence Search on a GPU. 251-260

Session 7: Interconnection Network

Ikki Fujiwara, Michihiro Koibuchi, Hiroki Matsutani, Henri Casanova:
Skywalk: A Topology for HPC Networks with Low-Delay Switches. 263-272
Xin Yuan, Santosh Mahapatra, Michael Lang, Scott Pakin:
LFTI: A New Performance Metric for Assessing Interconnect Designs for Extreme-Scale HPC Systems. 273-282
Pavan Poluri, Ahmed Louri:
An Improved Router Design for Reliable On-Chip Networks. 283-292
Jieming Yin, Pingqiang Zhou, Sachin S. Sapatnekar, Antonia Zhai:
Energy-Efficient Time-Division Multiplexed Hybrid-Switched NoC for Heterogeneous Multicore Systems. 293-303

Session 8: System-Level Resource Management

Dazhao Cheng, Changjun Jiang, Xiaobo Zhou:
Heterogeneity-Aware Workload Placement and Migration in Distributed Sustainable Datacenters. 307-316
Zahra Abbasi, Madhurima Pore, Sandeep K. S. Gupta:
Online Server and Workload Management for Joint Optimization of Electricity Cost and Carbon Footprint Across Data Centers. 317-326
Hsuan-Yi Chu, Yogesh Simmhan:
Cost-Efficient and Resilient Job Life-Cycle Management on Hybrid Clouds. 327-336
Giuseppe Coviello, Srihari Cadambi, Srimat T. Chakradhar:
A Coprocessor Sharing-Aware Scheduler for Xeon Phi-Based Compute Clusters. 337-346

Session 9: GPU Algorithms

Andrew A. Davidson, Sean Baxter, Michael Garland, John D. Owens:
Work-Efficient Parallel GPU Methods for Single-Source Shortest Paths. 349-359
Hristo N. Djidjev, Sunil Thulasidasan, Guillaume Chapuis, Rumen Andonov, Dominique Lavenier:
Efficient Multi-GPU Computation of All-Pairs Shortest Paths. 360-369
Weifeng Liu, Brian Vinter:
An Efficient GPU General Sparse Matrix-Matrix Multiplication for Irregular Data. 370-381
Ichitaro Yamazaki, Hartwig Anzt, Stanimire Tomov, Mark Hoemmen, Jack J. Dongarra:
Improving the Performance of CA-GMRES on Multicores with Multiple GPUs. 382-391

Session 10: Graph and Network Processing

Yong Guo, Marcin Biczak, Ana Lucia Varbanescu, Alexandru Iosup, Claudio Martella, Theodore L. Willke:
How Well Do Graph-Processing Platforms Perform? An Empirical Performance Evaluation and Analysis. 395-404
George M. Slota, Kamesh Madduri:
Complex Network Analysis Using Parallel Approximate Motif Counting. 405-414
Indranil Roy, Srinivas Aluru:
Finding Motifs in Biological Sequences Using the Micron Automata Processor. 415-424
Fabio Checconi, Fabrizio Petrini:
Traversing Trillions of Edges in Real Time: Graph Exploration on Large-Scale Parallel Machines. 425-434

Session 11: Modeling, Simulation, and Reliability

Jen-Cheng Huang, Lifeng Nai, Hyesoon Kim, Hsien-Hsin S. Lee:
TBPoint: Reducing Simulation Time for Large-Scale GPGPU Kernels. 437-446
Jee W. Choi, Marat Dukhan, Xing Liu, Richard W. Vuduc:
Algorithmic Time, Energy, and Power on Candidate HPC Compute Building Blocks. 447-457
Keun Soo Yim:
Characterization of Impact of Transient Faults and Detection of Data Corruption Errors in Large-Scale N-Body Programs Using Graphics Processing Units. 458-467
Jichi Guo, Jiayuan Meng, Qing Yi, Vitali A. Morozov, Kalyan Kumaran:
Analytically Modeling Application Execution for Software-Hardware Co-design. 468-477

Session 12: Accelerator Application Development and Optimization

Seyong Lee, Dong Li, Jeffrey S. Vetter:
Interactive Program Debugging and Optimization for Directive-Based, Efficient GPU Computing. 481-490
Azzam Haidar, Chongxiao Cao, Asim YarKhan, Piotr Luszczek, Stanimire Tomov, Khairul Kabir, Jack J. Dongarra:
Unified Development for Mixed Multi-GPU and Multi-coprocessor Environments Using a Lightweight Runtime Environment. 491-500
Saurav Muralidharan, Manu Shantharam, Mary W. Hall, Michael Garland, Bryan Catanzaro:
Nitro: A Framework for Adaptive Code Variant Tuning. 501-512
Peter M. Kogge:
Reading the Tea-Leaves: How Architecture Has Evolved at the High End. 515

Session 13: Combinatorial Algorithms

Fredrik Manne, Mahantesh Halappanavar:
New Effective Multithreaded Matching Algorithms. 519-528
Daniël Maria Pelt, Rob H. Bisseling:
A Medium-Grain Method for Fast 2D Bipartitioning of Sparse Matrices. 529-539
Fanny Dufossé, Kamer Kaya, Bora Uçar:
Bipartite Matching Heuristics with Quality Guarantees on Shared Memory Parallel Computers. 540-549
George M. Slota, Sivasankaran Rajamanickam, Kamesh Madduri:
BFS and Coloring-Based Parallel Algorithms for Strongly Connected Components and Related Problems. 550-559

Session 14: Large Scale Scientific Applications

Xing Liu, Edmond Chow:
Large-Scale Hydrodynamic Brownian Simulations on Multicore and Manycore Architectures. 563-572
Adam Fidel, Sam Ade Jacobs, Shishir Sharma, Nancy M. Amato, Lawrence Rauchwerger:
Using Load Balancing to Scalably Parallelize Sampling-Based Motion Planning Algorithms. 573-582
James E. McClure, Hao Wang, Jan F. Prins, Cass T. Miller, Wu-chun Feng:
Petascale Application of a Coupled CPU-GPU Algorithm for Simulation and Analysis of Multiphase Flow Solutions in Porous Medium Systems. 583-592
Amanda Peters Randles, Efthimios Kaxiras:
A Spatio-temporal Coupling Method to Reduce the Time-to-Solution of Cardiovascular Simulations. 593-602

Session 15: Multicore and Transactional Memory

Lihang Zhao, Lizhong Chen, Jeffrey T. Draper:
Mitigating the Mismatch between the Coherence Protocol and Conflict Detection in Hardware Transactional Memory. 605-614
Bhavishya Goel, J. Rubén Titos Gil, Anurag Negi, Sally A. McKee, Per Stenström:
Performance and Energy Analysis of the Restricted Transactional Memory Implementation on Haswell. 615-624
Madhavan Manivannan, Per Stenström:
Runtime-Guided Cache Coherence Optimizations in Multi-core Architectures. 625-636
Akshay Venkatesh, Sreeram Potluri, Raghunath Rajachandrasekar, Miao Luo, Khaled Hamidouche, Dhabaleswar K. Panda:
High Performance Alltoall and Allgather Designs for InfiniBand MIC Clusters. 637-646

Session 16: HPC Operating Systems and Runtime Systems

Brian Kocoloski, John R. Lange:
HPMMAP: Lightweight Memory Management for Commodity Operating Systems. 649-658
Swann Perarnau, Mitsuhisa Sato:
Victim Selection and Distributed Work Stealing Performance: A Case Study. 659-668
Ramy Medhat, Borzoo Bonakdarpour, Sebastian Fischmeister:
Power-Efficient Multiple Producer-Consumer. 669-678
Young Wn Song, Yann-Hang Lee:
Efficient Data Race Detection for C/C++ Programs Using Dynamic Granularity. 679-688

Session 17: Algorithms for Distributed Computing

Jiaqi Wang, Edward Talmage, Hyunyoung Lee, Jennifer L. Welch:
Improved Time Bounds for Linearizable Implementations of Abstract Data Types. 691-701
Gopal Pandurangan, Peter Robinson, Amitabh Trehan:
DEX: Self-Healing Expanders. 702-711
Jeremy T. Fineman, Calvin C. Newport, Micah Sherr, Tonghe Wang:
Fair Maximal Independent Sets. 712-721

Session 18: Milestones at the Petascale

Chuanfu Xu, Lilun Zhang, Xiaogang Deng, Jianbin Fang, Guangxue Wang, Wei Cao, Yonggang Che, Yongxian Wang, Wei Liu:
Balancing CPU-GPU Collaborative High-Order CFD Simulations on the Tianhe-1A Supercomputer. 725-734
Valéry Weber, Costas Bekas, Teodoro Laino, Alessandro Curioni, Adam Bertsch, Scott Futral:
Shedding Light on Lithium/Air Batteries Using Millions of Threads on the BG/Q Supercomputer. 735-744
Wei Xue, Chao Yang, Haohuan Fu, Xinliang Wang, Yangtong Xu, Lin Gan, Yutong Lu, Xiaoqian Zhu:
Enabling and Scaling a Global Shallow-Water Atmospheric Model on Tianhe-2. 745-754
Jae-Seung Yeom, Abhinav Bhatele, Keith R. Bisset, Eric J. Bohm, Abhishek Gupta, Laxmikant V. Kalé, Madhav V. Marathe, Dimitrios S. Nikolopoulos, Martin Schulz, Lukasz Wesolowski:
Overcoming the Scalability Challenges of Epidemic Simulations on Blue Waters. 755-764

Session 19: Storage and Reliability

Bo Mao, Hong Jiang, Suzhen Wu, Lei Tian:
POD: Performance Oriented I/O Deduplication for Primary Storage Systems in the Cloud. 767-776
Zigang Zhang, Yinliang Yue, Bingsheng He, Jin Xiong, Mingyu Chen, Lixin Zhang, Ninghui Sun:
Pipelined Compaction for the LSM-Tree. 777-786
Jiaxin Ou, Jiwu Shu, Youyou Lu, Letian Yi, Wei Wang:
EDM: An Endurance-Aware Data Migration Scheme for Load Balancing in SSD Storage Clusters. 787-796

Session 20: Map/Reduce and Big Data

Yandong Wang, Robin Goldstone, Weikuan Yu, Teng Wang:
Characterization and Optimization of Memory-Resident MapReduce on HPC Systems. 799-808
Yang You, Shuaiwen Leon Song, Haohuan Fu, Andres Marquez, Maryam Mehri Dehnavi, Kevin J. Barker, Kirk W. Cameron, Amanda Peters Randles, Guangwen Yang:
MIC-SVM: Designing a Highly Efficient Support Vector Machine for Advanced Modern Multi-core and Many-Core Architectures. 809-818
Reza Mokhtari, Michael Stumm:
BigKernel - High Performance CPU-GPU Communication Pipelining for Big Data-Style Applications. 819-828
Xiaoyi Lu, Fan Liang, Bing Wang, Li Zha, Zhiwei Xu:
DataMPI: Extending MPI to Hadoop-Like Big Data Computing. 829-838

Session 21: Network Algorithms

Patrick MacArthur, Robert D. Russell:
An Efficient Method for Stream Semantics over RDMA. 841-851
Zhiyang Guo, Yuanyuan Yang:
Collaborative Network Configuration in Hybrid Electrical/Optical Data Center Networks. 852-861
Hadas Shachnai, Ariella Voloshin, Shmuel Zaks:
Optimizing Bandwidth Allocation in Flex-Grid Optical Networks with Application to Scheduling. 862-871
Di Zhu, Lizhong Chen, Siyu Yue, Timothy Mark Pinkston, Massoud Pedram:
Balancing On-Chip Network Latency in Multi-application Mapping for Chip-Multiprocessors. 872-881
Joshua S. Bloom:
Astrophysical Applications of Machine Learning at Scale and under Duress. 885

Best Papers Session

Venkatesan T. Chakaravarthy, Fabio Checconi, Fabrizio Petrini, Yogish Sabharwal:
Scalable Single Source Shortest Path Algorithms for Massively Parallel Systems. 889-901
Xing Liu, Aftab Patel, Edmond Chow:
A New Scalable Parallel Algorithm for Fock Matrix Construction. 902-914
Xun Li, Diana Franklin, Ricardo Bianchini, Frederic T. Chong:
ReDHiP: Recalibrating Deep Hierarchy Prediction for Energy Efficiency. 915-926
Kaushik Ravichandran, Santosh Pande:
F2C2-STM: Flux-Based Feedback-Driven Concurrency Control for STMs. 927-938

Session 22: Performance Characterization and Optimization

Harald Servat, Germán Llort, Juan Gonzalez, Judit Giménez, Jesús Labarta:
Identifying Code Phases Using Piece-Wise Linear Regressions. 941-951
Alessio Sclocco, Henri E. Bal, Jason W. T. Hessels, Joeri van Leeuwen, Rob van Nieuwpoort:
Auto-Tuning Dedispersion for Many-Core Accelerators. 952-961
Florin Dinu, T. S. Eugene Ng:
RCMP: Enabling Efficient Recomputation Based Failure Resilience for Big Data Analytics. 962-971
Tingxing Dong, Veselin Dobrev, Tzanio V. Kolev, Robert N. Rieben, Stanimire Tomov, Jack J. Dongarra:
A Step towards Energy Efficient Computing: Redesigning a Hydrodynamic Application on CPU-GPU. 972-981

Session 23: Multithreading and Concurrency

Zehra Sura, Kevin O'Brien, José R. Brunheroto:
Using Multiple Threads to Accelerate Single Thread Performance. 985-994
Marc Casas, Greg Bronevetsky:
Active Measurement of Memory Resource Consumption. 995-1004
Korbinian Molitorisz, Thomas Karcher, Alexander Biele, Walter F. Tichy:
Locating Parallelization Potential in Object-Oriented Data Structures. 1005-1015

Session 24: Numerical Algorithms

Sudip K. Seal:
An Accelerated Recursive Doubling Algorithm for Block Tridiagonal Systems. 1019-1028
Mathieu Faverge, Julien Herrmann, Julien Langou, Bradley R. Lowery, Yves Robert, Jack J. Dongarra:
Designing LU-QR Hybrid Solvers for Performance and Stability. 1029-1038
Md Rakib Hasan, R. Clint Whaley:
Effectively Exploiting Parallel Scale for All Problem Sizes in LU Factorization. 1039-1048
Tyler M. Smith, Robert A. van de Geijn, Mikhail Smelyanskiy, Jeff R. Hammond, Field G. Van Zee:
Anatomy of High-Performance Many-Threaded Matrix Multiplication. 1049-1059

Session 25: Performance Impacts of Hardware Acceleration

George Teodoro, Tahsin M. Kurç, Jun Kong, Lee Cooper, Joel H. Saltz:
Comparative Performance Analysis of Intel (R) Xeon Phi (TM), GPU, and CPU: A Case Study from Microscopy Image Analysis. 1063-1072
Frank Tobias Winter, Mike A. Clark, Robert G. Edwards, Bálint Joó:
A Framework for Lattice QCD Calculations on GPUs. 1073-1082
Karthikeyan Vaidyanathan, Kiran Pamnany, Dhiraj D. Kalamkar, Alexander Heinecke, Mikhail Smelyanskiy, Jongsoo Park, Daehyun Kim, Aniruddha G. Shet, Bharat Kaul, Bálint Joó, Pradeep Dubey:
Improving Communication Performance and Scalability of Native Applications on Intel Xeon Phi Coprocessor Clusters. 1083-1092
Joshua Payne, Dana A. Knoll, Allen McPherson, William T. Taitano, Luis Chacón, Guangye Chen, Scott Pakin:
Computational Co-design of a Multiscale Plasma Application: A Process and Initial Results. 1093-1102

Session 26: Programming Models and Tools

Yili Zheng, Amir Kamil, Michael B. Driscoll, Hongzhang Shan, Katherine A. Yelick:
UPC++: A PGAS Extension for C++. 1105-1114
Khaled Z. Ibrahim, Paul Hargrove, Costin Iancu, Katherine A. Yelick:
An Evaluation of One-Sided and Two-Sided Communication Paradigms on Relaxed-Ordering Interconnect. 1115-1125
Alessandro Morari, Antonino Tumeo, Daniel G. Chavarría-Miranda, Oreste Villa, Mateo Valero:
Scaling Irregular Applications through Data Aggregation and Software Multithreading. 1126-1135
Michelle Mills Strout, Fabio Luporini, Christopher D. Krieger, Carlo Bertolli, Gheorghe-Teodor Bercea, Catherine Olschanowsky, J. Ramanujam, Paul H. J. Kelly:
Generalizing Run-Time Tiling with the Loop Chain Abstraction. 1136-1145

Session 27: Algorithms for High Performance Computing

Samuel Williams, Mike Lijewski, Ann S. Almgren, Brian van Straalen, Erin Carson, Nicholas Knight, James Demmel:
s-Step Krylov Subspace Methods as Bottom Solvers for Geometric Multigrid. 1149-1158
Grey Ballard, James Demmel, Laura Grigori, Mathias Jacquelin, Hong Diep Nguyen, Edgar Solomonik:
Reconstructing Householder Vectors from Tall-Skinny QR. 1159-1170
Katsuki Fujisawa, Toshio Endo, Yuichiro Yasui, Hitoshi Sato, Naoki Matsuzawa, Satoshi Matsuoka, Hayato Waki:
Petascale General Solver for Semidefinite Programming Problems with Over Two Million Constraints. 1171-1180
Sheng Di, Mohamed-Slim Bouguerra, Leonardo Arturo Bautista-Gomez, Franck Cappello:
Optimization of Multi-level Checkpoint Model for Large Scale HPC Applications. 1181-1190

Session 28: Scalable Algorithms

James Elliott, Mark Hoemmen, Frank Mueller:
Evaluating the Impact of SDC on the GMRES Iterative Solver. 1193-1202
Mohand Mezmaz, Rudi Leroy, Nouredine Melab, Daniel Tuyttens:
A Multi-core Parallel Branch-and-Bound Algorithm Using Factorial Number System. 1203-1212
Hasan Metin Aktulga, Aydin Buluç, Samuel Williams, Chao Yang:
Optimizing Sparse Matrix-Multiple Vectors Multiplication for Nuclear Configuration Interaction Calculations. 1213-1222

Session 29: Resilience and Reliability

Kento Sato, Adam Moody, Kathryn M. Mohror, Todd Gamblin, Bronis R. de Supinski, Naoya Maruyama, Satoshi Matsuoka:
FMI: Fault Tolerant Messaging Interface for Fast and Transparent Recovery. 1225-1234
Andrea Arteaga, Oliver Fuhrer, Torsten Hoefler:
Designing Bit-Reproducible Portable High-Performance Applications. 1235-1244
Qiang Guan, Nathan DeBardeleben, Sean Blanchard, Song Fu:
F-SEFI: A Fine-Grained Soft Error Fault Injection Tool for Profiling Application Vulnerability. 1245-1254

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