%
% Papers that we reference, BUT NOT any paper that uses PETSc or is about PETSc
% those belong in petscapp.bib
%
% DO NOT DEFINE ANY ABREVIATIONS TO USE IN ENTRIES BELOW: Always write out the names of journels etc
@techreport{knepley2013accurately,
title={Accurately Citing Software and Algorithms Used in Publications},
author={Knepley, Matthew G and Brown, Jed and McInnes, Lois Curfman and Smith, Barry F.},
year={2013},
institution={http://files.figshare.com/1187013/paper.pdf}
}
@inproceedings{devito2011liszt,
title={Liszt: a domain specific language for building portable mesh-based PDE solvers},
author={DeVito, Zachary and Joubert, Niels and Palacios, Francisco and Oakley, Stephen and Medina, Montserrat and Barrientos, Mike and Elsen, Erich and Ham, Frank and Aiken, Alex and Duraisamy, Karthik and others},
booktitle={Proceedings of 2011 International Conference for High Performance Computing, Networking, Storage and Analysis},
pages={9},
year={2011},
organization={ACM}
}
@article{devito2011designing,
title={Designing the Language Liszt for Building Portable Mesh-based PDE Solvers},
author={DeVito, Zachary and Hanrahan, Pat},
journal={Scientific Discovery through Advanced Computing Program (SciDAC)},
year={2011}
}
@Misc{PGASintro,
author = {Tim Stitt},
title = {An Introduction to the Partitioned Global Address Space (PGAS) Programming Model},
note = {\url{http://cnx.org/content/m20649/latest/}}
}
@inproceedings{el2006upc,
title={UPC: unified parallel C},
author={El-Ghazawi, Tarek and Smith, Lauren},
booktitle={Proceedings of the 2006 ACM/IEEE conference on Supercomputing},
pages={27},
year={2006},
organization={ACM}
}
@inproceedings{numrich1998co,
title={Co-Array Fortran for parallel programming},
author={Numrich, Robert W and Reid, John},
booktitle={ACM Sigplan Fortran Forum},
volume={17},
number={2},
pages={1--31},
year={1998},
organization={ACM}
}
@article{aiken1997titanium,
title={Titanium: A high-performance Java dialect},
author={Aiken, Alex and Colella, Phil and Gay, David and Graham, Susan and Hilfinger, Paul and Krishnamurthy, Arvind and Liblit, Ben and Miyamoto, Carleton and Pike, Geoff and Semenzato, Luigi and others},
year={1997}
}
@article{charles2005x10,
title={X10: an object-oriented approach to non-uniform cluster computing},
author={Charles, Philippe and Grothoff, Christian and Saraswat, Vijay and Donawa, Christopher and Kielstra, Allan and Ebcioglu, Kemal and Von Praun, Christoph and Sarkar, Vivek},
journal={Acm Sigplan Notices},
volume={40},
number={10},
pages={519--538},
year={2005},
publisher={ACM}
}
@article{chamberlain2007parallel,
title={Parallel programmability and the chapel language},
author={Chamberlain, Bradford L and Callahan, David and Zima, Hans P},
journal={International Journal of High Performance Computing Applications},
volume={21},
number={3},
pages={291--312},
year={2007},
publisher={SAGE Publications}
}
@inproceedings{CharmppOOPSLA93,
author = "{Kal\'{e}}, L.V. and Krishnan, S.",
title = "{CHARM++: A Portable Concurrent Object Oriented System
Based on C++}",
editor = "Paepcke, A.",
fulleditor = "Paepcke, Andreas",
pages = "91--108",
Month = "September",
Year = "1993",
booktitle = "{Proceedings of OOPSLA'93}",
publisher = "{ACM Press}",
}
@inproceedings{hewitt1973universal,
title={A universal modular actor formalism for artificial intelligence},
author={Hewitt, Carl and Bishop, Peter and Steiger, Richard},
booktitle={Proceedings of the 3rd international joint conference on Artificial intelligence},
pages={235--245},
year={1973},
organization={Morgan Kaufmann Publishers Inc.}
}
@book{yonezawa1990abcl,
title={ABCL: an object-oriented concurrent system},
author={Yonezawa, Akinori},
year={1990},
publisher={MIT press}
}
@inproceedings{dally1988object,
title={Object-oriented concurrent programming in CST},
author={Dally, William J and Chien, Andrew A},
booktitle={Proceedings of the third conference on Hypercube concurrent computers and applications: Architecture, software, computer systems, and general issues-Volume 1},
pages={434--439},
year={1988},
organization={ACM}
}
@article{grimshaw1993easy,
title={Easy-to-use object-oriented parallel processing with Mentat},
author={Grimshaw, Andrew S.},
journal={Computer},
volume={26},
number={5},
pages={39--51},
year={1993},
publisher={IEEE}
}
@inproceedings{gannon1991object,
title={Object oriented parallelism: pC++ ideas and experiments},
author={Gannon, Dennis and Lee, JK},
booktitle={Proceedings of},
pages={13--23},
year={1991}
}
@inproceedings{lau1992object,
title={An object-oriented class library for scalable parallel heuristic search},
author={Lau, Wing-cheong and Singh, Vineet},
booktitle={ECOOP’92 European Conference on Object-Oriented Programming},
pages={252--267},
year={1992},
organization={Springer}
}
@book{chase1989amber,
title={The Amber system: Parallel programming on a network of multiprocessors},
author={Chase, Jeffery and Amador, Franz and Lazowska, Edward and Levy, Henry and Littlefield, Richard},
volume={23},
number={5},
year={1989},
publisher={ACM}
}
@inproceedings{kaiser2009parallex,
title={Parallex an advanced parallel execution model for scaling-impaired applications},
author={Kaiser, Hartmut and Brodowicz, Maciej and Sterling, Thomas},
booktitle={Parallel Processing Workshops, 2009. ICPPW'09. International Conference on},
pages={394--401},
year={2009},
organization={IEEE}
}
@TechReport{ipm,
Author = "Barry F. Smith",
Title = "A New Parallel Programming Model for Computer Simulation",
Institution = "Argonne National Laboratory",
Year = 2014,
Number = {ANL/MCS-P5135-0414}
}
@article{groppsnir,
author = {William Gropp and Marc Snir},
title = {Programming for Exascale Computers},
journal ={Computing in Science and Engineering},
volume = {15},
number = {6},
issn = {1521-9615},
year = {2013},
pages = {27-35},
doi = {http://doi.ieeecomputersociety.org/10.1109/MCSE.2013.96},
publisher = {IEEE Computer Society},
address = {Los Alamitos, CA},
}
# https://fs.hlrs.de/projects/par/mpi/mpi30/
@book{mpi3,
title="MPI: A Message-Passing Interface Standard, Version 3.0",
author={Message Passing Interface Forum},
year={2012},
publisher={High Performance Computing Center Stuttgart (HLRS)}
}
@book{openmp4,
title="OpenMP Application Program Interface, Version 4.0",
year={2013},
publisher={OpenMP Architecture Review Board}
}
@inproceedings{hartono2009annotation,
title={Annotation-based empirical performance tuning using {Orio}},
author={Hartono, Albert and Norris, Boyana and Sadayappan, Ponnuswamy},
booktitle={Parallel \& Distributed Processing, 2009. IPDPS 2009. IEEE International Symposium on},
pages={1--11},
year={2009},
organization={IEEE}
}
@book{toselli2005domain,
title="Domain Decomposition Methods: Algorithms and Theory",
author={Toselli, Andrea and Widlund, Olof B},
volume={34},
year={2005},
publisher={Springer}
}
@inbook{st2013,
author = "B. F. Smith and X. Tu",
chapter = "Domain Decomposition",
title = "Encyclopedia of Applied and Computational Mathematics",
bookeditor = "B. Engquist",
publisher = "Springer",
year = "2013"
}
@TechReport{ saws,
Author = "Matt Otten and Jed Brown and Barry F. Smith",
Title = "Scientific Application Web Server (SAWs) Users Manual",
Institution = "Argonne National Laboratory",
Year = 2013
}
@article{smith1997domain,
title={Domain Decomposition Methods for Partial Differential Equations},
author={Smith, B.F.},
journal={ICASE LARC Interdisciplinary Series in Science and Engineering},
volume={4},
pages={225--244},
year={1997},
publisher={Citeseer}
}
@book{KS2000,
Author = {D. Kinderlehrer and G. Stampacchia},
Publisher = {Society for Industrial Mathematics},
Title = {An Introduction to Variational Inequalities and Their Applications},
Year = {2000}
}
@article{wan2000energy,
title={An energy-minimizing interpolation for robust multigrid methods},
author={Wan, W.L. and Chan, T.F. and Smith, B. F.},
journal={SIAM Journal on Scientific Computing},
volume={21},
number={4},
pages={1632--1649},
year={2000},
publisher={Philadelphia, PA: SIAM, c1993-}
}
@article{chansmith1994,
title={Domain decomposition and multigrid algorithms for elliptic problems on unstructured meshes},
author={Chan, T.F. and Smith, B.F.},
journal={Electronic Transactions on Numerical Analysis},
volume={2},
pages={171--182},
year={1994}
}
@TechReport( proto-fsp,
Author = "Venkatramani Balaji and Barry Smith and Brian Van Straalen and Priya Vashishta and Michael Zarnstorff and Michael Zika",
Title = "Report of the {Proto-FSP} {Assessment Panel for the FSP}",
Institution = "Princeton Plasma Physics Laboratory",
Year = 2010,
url = {http://www.pppl.gov/fsp/documents/Proto-FSPAssessmentReport.pdf}
)
@article{ipsen2001,
Author = {Ilse C. F. Ipsen},
Journal = {SIAM J. Sci. Comput.},
Pages = {1050--1051},
Volume = 23,
Publisher = {SIAM},
Title = {A Note on Preconditioning Nonsymmetric Matrices},
Year = {2001}}
% Random papers on solvers for GPUs
@inproceedings{gpus-suck,
author = {Vuduc, R. and Chandramowlishwaran, A. and Choi, J. and Guney M. },
title = { On the Limits of {GPU} Acceleration},
booktitle = {HOTPAR: Proceedings of the 2nd USENIX Workshop on Hot Topics in Parallelism},
year = {2010},
publisher = {USENIX}
}
@inproceedings{882364,
author = {Bolz, Jeff and Farmer, Ian and Grinspun, Eitan and Schr\"{o}oder, Peter},
title = {Sparse matrix solvers on the {GPU}: conjugate gradients and multigrid},
booktitle = {SIGGRAPH '03: ACM SIGGRAPH 2003 Papers},
year = {2003},
isbn = {1-58113-709-5},
pages = {917--924},
location = {San Diego, California},
doi = {http://doi.acm.org/10.1145/1201775.882364},
publisher = {ACM},
address = {New York, NY},
}
@conference{feng2008multigrid,
Author = {Feng, Z. and Li, P.},
Booktitle = {IEEE/ACM International Conference on Computer-Aided Design, 2008. ICCAD 2008},
Date-Added = {2010-08-19 15:57:06 -0500},
Date-Modified = {2010-08-19 15:57:06 -0500},
Pages = {647--654},
Title = {Multigrid on {GPU}: Tackling power grid analysis on parallel SIMT platforms},
Year = {2008}}
@conference{goodnight2003multigrid,
Author = {Goodnight, N. and Woolley, C. and Lewin, G. and Luebke, D. and Humphreys, G.},
Booktitle = {Proceedings of the ACM SIGGRAPH/EUROGRAPHICS conference on Graphics hardware},
Date-Added = {2010-08-19 15:45:20 -0500},
Date-Modified = {2010-08-19 15:45:20 -0500},
Organization = {Eurographics Association},
Pages = {102--111},
Title = {A multigrid solver for boundary value problems using programmable graphics hardware},
Year = {2003}}
@article{buatois2007concurrent,
Author = {Buatois, L. and Caumon, G. and L{\'e}vy, B.},
Date-Added = {2010-08-19 15:45:02 -0500},
Date-Modified = {2010-08-19 15:45:02 -0500},
Journal = {High Performance Computing and Communications},
Pages = {358--371},
Publisher = {Citeseer},
Title = {Concurrent number cruncher: {A}n efficient sparse linear solver on the {GPU}},
Year = {2007}}
@article{joldes2010real,
Author = {Joldes, G.R. and Wittek, A. and Miller, K.},
Date-Added = {2010-08-19 15:44:41 -0500},
Date-Modified = {2010-08-19 15:44:41 -0500},
Journal = {Computer Methods in Applied Mechanics and Engineering},
Publisher = {Elsevier},
Title = {Real-time nonlinear finite element computations on {GPU}-application to neurosurgical simulation},
Year = {2010}}
@misc{aharon2005gpu,
Author = {Aharon, S.},
Date-Added = {2010-08-19 15:44:32 -0500},
Date-Modified = {2010-08-19 15:44:32 -0500},
Month = apr # {~27},
Note = {US Patent App. 11/115,642},
Publisher = {Google Patents},
Title = {{GPU}-based Finite Element},
Year = {2005}}
@article{cevahir2009fast,
Author = {Cevahir, A. and Nukada, A. and Matsuoka, S.},
Date-Added = {2010-08-19 15:44:01 -0500},
Date-Modified = {2010-08-19 15:44:01 -0500},
Journal = {Computational Science--ICCS 2009},
Pages = {893--903},
Publisher = {Springer},
Title = {Fast conjugate gradients with multiple {GPU}s},
Year = {2009}}
@article{maier1995symmetric,
Author = {Maier, G. and Miccoli, S. and Perego, U. and Novati, G.},
Date-Added = {2010-08-19 15:43:57 -0500},
Date-Modified = {2010-08-19 15:43:57 -0500},
Journal = {Computational Mechanics},
Number = {1},
Pages = {115--129},
Publisher = {Springer},
Title = {Symmetric {G}alerkin boundary element method in plasticity and gradient plasticity},
Volume = {17},
Year = {1995}}
@article{corrigan-running,
Author = {Corrigan, A. and Camelli, F. and L{\\"o}hner, R. and Wallin, J.},
Date-Added = {2010-08-19 15:43:47 -0500},
Date-Modified = {2010-08-19 15:43:47 -0500},
Journal = {International Journal for Numerical Methods in Fluids},
Publisher = {John Wiley \& Sons},
Title = {Running unstructured grid based CFD solvers on modern graphics hardware}}
@inproceedings{Volkov08,
author = {Vasily Volkov and James W. Demmel},
title = {Benchmarking GPUs to tune dense linear algebra},
booktitle = {Proceedings of the 2008 ACM/IEEE Conference on Supercomputing (SC08)},
note = {\url{http://mc.stanford.edu/cgi-bin/images/6/65/SC08_Volkov_GPU.pdf}},
year = {2008}
}
@techreport{cray-mvmult,
author = "Guy~E. Blelloch and Michael~A. Heroux and Marco Zagha",
title = "Segmented Operations for Sparse Matrix Computation
on Vector Multiprocessors",
institution = "School of Computer Science, Carnegie Mellon University",
number = "CMU-CS-93-173",
month = aug,
year = 1993}
@conference{bell2009implementing,
Author = {Bell, N. and Garland, M.},
Booktitle = {Proceedings of the Conference on High Performance Computing Networking, Storage and Analysis},
Date-Added = {2010-08-19 15:43:42 -0500},
Date-Modified = {2010-08-19 15:43:42 -0500},
Organization = {ACM},
Pages = {1--11},
Title = {Implementing sparse matrix-vector multiplication on throughput-oriented processors},
Year = {2009}}
@article{bell2008efficient,
Author = {Bell, N. and Garland, M.},
Date-Added = {2010-08-19 15:43:36 -0500},
Date-Modified = {2010-08-19 15:43:36 -0500},
Journal = {{NVIDIA} Corporation, {NVIDIA} Technical Report NVR-2008-004},
Title = {Efficient sparse matrix-vector multiplication on {CUDA}},
Year = {2008}}
@article{cohen-fast,
Author = {Cohen, J. and Molemaker, M.J.},
Date-Added = {2010-08-19 15:43:34 -0500},
Date-Modified = {2010-08-19 15:43:34 -0500},
Journal = {Parallel Computational Fluid Dynamics: Recent Advances and Future Directions},
Pages = {414},
Publisher = {DEStech Publications},
Title = {A fast double precision CFD code using CUDA}}
@article{kazhdan2008streaming,
Author = {Kazhdan, M. and Hoppe, H.},
Date-Added = {2010-08-19 15:43:32 -0500},
Date-Modified = {2010-08-19 15:43:32 -0500},
Journal = {ACM Transactions on Graphics (TOG)},
Number = {3},
Pages = {21},
Publisher = {ACM},
Title = {Streaming multigrid for gradient-domain operations on large images},
Volume = {27},
Year = {2008}}
@article{bonnet1998symmetric,
Author = {Bonnet, M. and Maier, G. and Polizzotto, C.},
Date-Added = {2010-08-19 15:43:18 -0500},
Date-Modified = {2010-08-19 15:43:18 -0500},
Journal = {Appl. Mech. Rev},
Pages = {669--704},
Title = {Symmetric {G}alerkin boundary element method.},
Volume = {51},
Year = {1998}}
@conference{zamith2007gpu,
Author = {Zamith, M. and Clua, E. and Pagliosa, P. and Conci, A. and Montenegro, A. and Valente, L.},
Booktitle = {Proceedings of the VI Brazilian Symposium on Computer Games and Digital Entertainment},
Date-Added = {2010-08-19 15:43:14 -0500},
Date-Modified = {2010-08-19 15:43:14 -0500},
Pages = {37--43},
Title = {The {GPU} used as a math co-processor in real time applications},
Year = {2007}}
@article{baskaran2009optimizing,
Author = {Baskaran, M.M. and Bordawekar, R.},
Date-Added = {2010-08-19 15:42:56 -0500},
Date-Modified = {2010-08-19 15:42:56 -0500},
Journal = {IBM Research Report RC24704, IBM},
Title = {Optimizing sparse matrix-vector multiplication on {GPU}s},
Year = {2009}}
@misc{szeliski2006locally,
Author = {Szeliski, R.},
Date-Added = {2010-08-19 15:42:45 -0500},
Date-Modified = {2010-08-19 15:42:45 -0500},
Month = jul # {~25},
Note = {US Patent App. 11/459,724},
Publisher = {Google Patents},
Title = {Locally adapted hierarchical basis preconditioning},
Year = {2006}}
@article{jung2006cholesky,
Author = {Jung, J.H. and O'Leary, D.P.},
Date-Added = {2010-08-19 15:42:34 -0500},
Date-Modified = {2010-08-19 15:42:34 -0500},
Journal = {Scholarly Paper, University of Maryland},
Publisher = {Citeseer},
Title = {Cholesky decomposition and linear programming on a {GPU}},
Year = {2006}}
@conference{filipovic2009gpu,
Author = {Filipovic, J. and Peterlik, I. and Fousek, J.},
Booktitle = {SAAHPC: Symposium on Application Accelerators in HPC},
Date-Added = {2010-08-19 15:42:33 -0500},
Date-Modified = {2010-08-19 15:42:33 -0500},
Title = {{GPU} Acceleration of Equations Assembly in Finite Elements Method-Preliminary Results},
Year = {2009}}
@article{taylor2009modelling,
Author = {Taylor, ZA and Comas, O. and Cheng, M. and Passenger, J. and Hawkes, DJ and Atkinson, D. and Ourselin, S.},
Date-Added = {2010-08-19 15:42:23 -0500},
Date-Modified = {2010-08-19 15:42:23 -0500},
Journal = {Medical Image Analysis},
Number = {2},
Pages = {234--244},
Publisher = {Elsevier},
Title = {On modelling of anisotropic viscoelasticity for soft tissue simulation: Numerical solution and {GPU} execution},
Volume = {13},
Year = {2009}}
@conference{owens2007survey,
Author = {Owens, J.D. and Luebke, D. and Govindaraju, N. and Harris, M. and Kr{\\"u}ger, J. and Lefohn, A.E. and Purcell, T.J.},
Booktitle = {Computer Graphics Forum},
Date-Added = {2010-08-19 15:42:21 -0500},
Date-Modified = {2010-08-19 15:42:21 -0500},
Number = {1},
Organization = {John Wiley \& Sons},
Pages = {80--113},
Title = {A survey of general-purpose computation on graphics hardware},
Volume = {26},
Year = {2007}}
@article{strzodka2005scientific,
Author = {Strzodka, R. and Doggett, M. and Kolb, A.},
Date-Added = {2010-08-19 15:42:18 -0500},
Date-Modified = {2010-08-19 15:42:18 -0500},
Journal = {Simulation Modelling Practice and Theory},
Number = {8},
Pages = {667--680},
Publisher = {Elsevier},
Title = {Scientific computation for simulations on programmable graphics hardware},
Volume = {13},
Year = {2005}}
@conference{rumpf2001using,
Author = {Rumpf, M. and Strzodka, R.},
Booktitle = {Proc. of IASTED Visualization, Imaging and Image Processing Conference (VIIP-01)},
Date-Added = {2010-08-19 15:42:15 -0500},
Date-Modified = {2010-08-19 15:42:15 -0500},
Organization = {Citeseer},
Pages = {193--202},
Title = {Using graphics cards for quantized FEM computations},
Year = {2001}}
@article{sirtori1992galerkin,
Author = {Sirtori, S. and Maier, G. and Novati, G. and Miccoli, S.},
Date-Added = {2010-08-19 15:42:14 -0500},
Date-Modified = {2010-08-19 15:42:14 -0500},
Journal = {International Journal for Numerical Methods in Engineering},
Number = {2},
Pages = {255--282},
Publisher = {John Wiley \& Sons},
Title = {A {G}alerkin symmetric boundary-element method in elasticity: formulation and implementation},
Volume = {35},
Year = {1992}}
@article{tejada2005large,
Author = {Tejada, E. and Ertl, T.},
Date-Added = {2010-08-19 15:42:09 -0500},
Date-Modified = {2010-08-19 15:42:09 -0500},
Journal = {Simulation Modelling Practice and Theory},
Number = {8},
Pages = {703--715},
Publisher = {Elsevier},
Title = {Large steps in {GPU}-based deformable bodies simulation},
Volume = {13},
Year = {2005}}
@article{goddeke2008using,
Author = {Goddeke, D. and Strzodka, R. and Mohd-Yusof, J. and McCormick, P. and Wobker, H. and Becker, C. and Turek, S.},
Date-Added = {2010-08-19 15:42:06 -0500},
Date-Modified = {2010-08-19 15:42:06 -0500},
Journal = {International Journal of Computational Science and Engineering},
Number = {1},
Pages = {36--55},
Publisher = {Inderscience},
Title = {Using {GPU}s to improve multigrid solver performance on a cluster},
Volume = {4},
Year = {2008}}
@article{garland2008parallel,
Author = {Garland, M. and Le Grand, S. and Nickolls, J. and Anderson, J. and Hardwick, J. and Morton, S. and Phillips, E. and Zhang, Y. and Volkov, V.},
Date-Added = {2010-08-19 15:41:51 -0500},
Date-Modified = {2010-08-19 15:41:51 -0500},
Journal = {IEEE Micro},
Number = {4},
Pages = {13--27},
Title = {Parallel computing experiences with CUDA},
Volume = {28},
Year = {2008}}
@article{wong1985method,
Author = {Wong, SH and Ciric, IR},
Date-Added = {2010-08-19 15:41:48 -0500},
Date-Modified = {2010-08-19 15:41:48 -0500},
Journal = {COMPEL: The International Journal for Computation and Mathematics in Electrical and Electronic Engineering},
Publisher = {MCB UP Ltd},
Title = {Method of conformal transformation for the finite-element solution of axisymmetric exterior-field problems},
Volume = {4},
Year = {1985}}
@article{turek-feast,
Author = {Turek, S. and G{\\"o}ddeke, D. and Becker, C. and Buijssen, S.H.M. and Wobker, H.},
Date-Added = {2010-08-19 15:41:47 -0500},
Date-Modified = {2010-08-19 15:41:47 -0500},
Journal = {Concurrency and Computation: Practice and Experience},
Publisher = {John Wiley \& Sons},
Title = {FEAST-realization of hardware-oriented numerics for HPC simulations with finite elements}}
@article{abedi2006space,
Author = {Abedi, R. and Petracovici, B. and Haber, R.B.},
Date-Added = {2010-08-19 15:41:46 -0500},
Date-Modified = {2010-08-19 15:41:46 -0500},
Journal = {Computer Methods in Applied Mechanics and Engineering},
Number = {25-28},
Pages = {3247--3273},
Publisher = {Elsevier},
Title = {A space-time discontinuous {G}alerkin method for linearized elastodynamics with element-wise momentum balance},
Volume = {195},
Year = {2006}}
@conference{georgii2005interactive,
Author = {Georgii, J. and Westermann, R.},
Booktitle = {Proceedings of VMV},
Date-Added = {2010-08-19 15:41:36 -0500},
Date-Modified = {2010-08-19 15:41:36 -0500},
Title = {Interactive simulation and rendering of heterogeneous deformable bodies},
Year = {2005}}
@article{mosegaard2005gpu,
Author = {Mosegaard, J. and others},
Date-Added = {2010-08-19 15:41:35 -0500},
Date-Modified = {2010-08-19 15:41:35 -0500},
Publisher = {IEEE Computer Society},
Title = {{GPU} accelerated surgical simulators for complex morphology},
Year = {2005}}
@article{meyer2007particle,
Author = {Meyer, M. and Nelson, B. and Kirby, R. and Whitaker, R.},
Date-Added = {2010-08-19 15:41:33 -0500},
Date-Modified = {2010-08-19 15:41:33 -0500},
Journal = {IEEE Transactions on Visualization and Computer Graphics},
Pages = {1015--1026},
Publisher = {Published by the IEEE Computer Society},
Title = {Particle systems for efficient and accurate high-order finite element visualization},
Year = {2007}}
@conference{rumpf2001nonlinear,
Author = {Rumpf, M. and Strzodka, R.},
Booktitle = {Data Visualization 2001: proceedings of the Joint Eurographics-IEEE TCVG Symposium on Visualization in Ascona, Switzerland, May 28-30, 2001},
Date-Added = {2010-08-19 15:41:29 -0500},
Date-Modified = {2010-08-19 15:41:29 -0500},
Organization = {Springer Verlag Wien},
Pages = {75},
Title = {Nonlinear diffusion in graphics hardware},
Year = {2001}}
@article{georgii2005interactive,
Author = {Georgii, J. and Echtler, F. and Westermann, R.},
Date-Added = {2010-08-19 15:41:28 -0500},
Date-Modified = {2010-08-19 15:41:28 -0500},
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% ----------------------------------------------------------------------------------------------------------------
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}
@INPROCEEDINGS{ kohn01,
AUTHOR= "Scott Kohn and Gary Kumfert and Jeff Painter and Cal Ribbens",
TITLE= "Divorcing Language Dependencies from a Scientific Software Library",
PUBLISHER= "SIAM",
BOOKTITLE= "Proceedings of the Tenth SIAM Conference on Parallel Processing",
year = 2001,
}
@INPROCEEDINGS{ freitag_jones_plassmann98,
AUTHOR= "Lori Freitag and Mark Jones and Paul Plassmann",
TITLE= "Component Integration for Unstructured Mesh Algorithms and Software",
PUBLISHER= "SIAM",
BOOKTITLE= "Proceedings of the SIAM Workshop on Object Oriented Methods for
Inter-operable Scientific and Engineering Computing",
year = 1999,
pages = "215-224",
}
@BOOK{templates,
AUTHOR = {R. Barrett and M. Berry and T. F. Chan and J. Demmel and J. Donato and J. Dongarra and V. Eijkhout
and R. Pozo and C. Romine and H. Van der Vorst },
TITLE = {Templates for the Solution of Linear Systems: Building Blocks for Iterative Methods},
PUBLISHER = {SIAM},
YEAR = {1994},
ADDRESS = {Philadelphia, PA}
}
@InProceedings{parasha2,
author = {M. Parashar and J. C. Browne and C. Edwards and K. Klimkowski},
title = { A Common Data Management Infrastructure for Parallel Adaptive
Algorithms for {PDE} Solutions},
booktitle = {SC97 Proceedings},
publisher = "IEEE Computer Society Press",
year = {1997}
}
@TECHREPORT{parasha,
AUTHOR="M. Parashar and J. C. Browne",
TITLE="{DAGH}: A Data-Management Infrastructure for Parallel
Adaptive Mesh Refinement Techniques",
INSTITUTION="Department of Computer Science, University of
Texas at Austin",
YEAR="1995"
}
@Article{parti,
author = {R. Das and M. Uysal and J. Saltz and Y. S. Hwang},
title = {Communication Optimizations for Irregular
Scientific Computations on Distributed Memory Architectures},
journal = {Journal of Parallel and Distributed Computing},
year = {1994},
volume = {22},
pages = {462--478}
}
@Article{mparti,
author = {G. Agrawal and A. Sussman and J. Saltz},
title = {An Integrated Runtime and Compile-time Approach for
Parallelizing Structured and Block Structured Applications},
journal = {IEEE Trans. on Parallel and Distributed Systems},
volume = {6},
number = {7},
year = "1995"
}
@Article{gropp-lusk-doss-skjellum,
author = { William Gropp and Ewing Lusk and Nathan Doss and Anthony
Skjellum},
title = {A high-performance, portable implementation of the {MPI}
Message Passing Interface standard},
journal = {Parallel Computing},
year = 1996,
volume = 22,
pages = {789--828}
}
@InProceedings{lam,
author = "Greg Burns and Raja Daoud and James Vaigl",
title = "{LAM}: An Open Cluster Environment for {MPI}",
booktitle = "Proceedings of Supercomputing Symposium '94",
editor = "John W. Ross",
publisher = "University of Toronto",
pages = "379--386",
year = 1994,
}
@Article{cs99,
author = "X.-C. Cai and M. Sarkis",
title = "A restricted additive {S}chwarz preconditioner for general sparse linear systems",
journal = "SIAM J. Scientific Computing",
year = "1999",
volume = "21",
pages = "792-797"
}
@TechReport( cs97a,
AUTHOR = "X.-C. Cai and M. Sarkis",
TITLE = "A restricted additive {S}chwarz preconditioner for general sparse linear systems ",
YEAR = 1997,
Institution = "Computer Science Department,
University of Colorado-Boulder",
Number = "CU-CS 843-97",
Note= "(accepted by SIAM J. of Scientific Computing)"
)
@article{cai2003restricted,
title={Restricted additive {S}chwarz preconditioners with harmonic overlap for symmetric positive definite linear systems},
author={Cai, X.C. and Dryja, M. and Sarkis, M.},
journal={SIAM Journal on Numerical Analysis},
volume=41,
issue=1,
pages={1209--1231},
year=2003,
doi={10.1137/S0036142901389621}
}
@TECHREPORT{caisaad,
AUTHOR="Xiao-Chuan Cai and Youcef Saad",
TITLE="Overlapping domain decomposition algorithms for
general sparse matrices",
INSTITUTION="Army High Performance Computing
Research Center, University of Minnesota ",
YEAR="1993",
NUMBER="Preprint 93-027 ",
NOTE= "SIAM J. Sci. Comp. (submitted)"
}
@BOOK{ruminations,
AUTHOR="Andrew Koenig and Barbara Moo",
TITLE="Ruminations on C++",
YEAR="1996",
PUBLISHER="Addison-Wesley"
}
@BOOK{mpi-complete,
AUTHOR="Marc Snir and Steve Otto and Steven Huss-Lederman and David
Walker and Jack Dongarra",
TITLE="{MPI}: The Complete Reference",
YEAR="1995",
PUBLISHER="MIT Press"
}
@Unpublished{ tcl-tk-web-page,
title = "{Tcl/Tk} {W}orld {W}ide {W}eb page",
note = "http://www.sunlabs.com/research/tcl/",
year = 1996,
month = Aug
}
@Unpublished{ mpich-web-page,
author = "William Gropp and Ewing Lusk",
key = "MPICH",
title = "{MPICH} {W}eb page",
note = "http://www.mcs.anl.gov/mpi/mpich",
}
@Article{ MPI-final,
Title = "{MPI}: A Message-Passing Interface Standard",
Journal = "International J. Supercomputing Applications",
Volume = 8,
Number = "3/4",
Year = 1994,
Key = "MPI Standard - final"
}
@Unpublished{ npb-web-page,
key = "NAS Parallel Benchmarks",
title = "{NAS} {P}arallel {B}enchmarks {W}eb page",
note = "http://www.nas.nasa.\-gov/\-NAS/\-NPB/\-index.html",
year = 1996,
month = Dec
}
@book{ george81,
TITLE = "Computer Solution of Large Sparse Positive Definite Systems",
AUTHOR= "Alan George and Joseph W. Liu",
PUBLISHER = "Prentice-Hall",
YEAR = 1981,
KEY = "SparseDirect"
}
@book{ p4-book,
TITLE = "Portable Programs for Parallel Processors",
PUBLISHER = "Holt, Rinehart, {and} Winston",
YEAR = 1987,
AUTHOR = "James Boyle and Ralph Butler and Terrence Disz and
Barnett Glickfeld and Ewing Lusk and Ross Overbeek and
James Patterson and Rick Stevens",
KEY = "P4Book"
}
@Article{stones,
author = "H. L. Stone",
title = "Iterative solution of implicit approximations of multidimensional partial differential equations",
journal = "SIAM J. Numerical Analysis",
pages = "87--113",
volumne = 5,
Year = 1968
}
@Article{parallelstones,
author = "J. S. Reeve and A. D. Scurr and J. H. Merlin",
title = "Parallel versions of {S}tones strongly implicit algorithm",
journal = "Concurrency and Computation: Practice and Experience",
pages = "1049--1062",
volumne = 13,
Year = 2001
}
@Article{p4-paper,
author = "Ralph Butler and Ewing Lusk",
title = "Monitors, Messages, and Clusters: {T}he p4 Parallel
Programming System",
journal = "Journal of Parallel Computing",
note = "To appear (Also Argonne National Laboratory Mathematics and
Computer Science Division preprint P362-0493)",
Year = 1993
}
@TechReport(picl,
Author= "G.~A.~Geist and Michael~T.~Heath and B.~W.~Peyton and
Patrick~H.~Worley",
Title= "{PICL}: A portable instrumented communications library",
Institution= "Oak Ridge National Laboratory",
Number= "TM-11130",
Year= "1990",
Key= "PICL")
@TechReport( upshot,
Author= "Virginia Herrarte and Ewing Lusk",
Title= "Studying Parallel Program Behavior with {U}pshot",
Institution= "Argonne National Laboratory",
Number= "ANL-91/15",
Month= AUG,
Year= "1991",
Key= "Upshot" )
@TechReport( p4-manual,
Author= "Ralph Butler and Ewing Lusk",
Title= "User's Guide to the p4 Parallel Programming System",
Institution= "Argonne National Laboratory",
Number= "ANL-92/17",
Month= Oct,
Year= "1992",
Key= "p4-Manual" )
@inproceedings{oldparti,
Author = "Gagan Agrawal and Alan Sussman and Joel Saltz",
Title = "Compiler and Runtime Support for Unstructured and Block
Structured Problems",
BOOKTITLE = "Proceedings of Supercomputing '93",
pages = "578--587",
YEAR = "1993"
}
@article{parti2,
Author = "S. S. Mukherjee and S. D. Sharma and
M. DF. Hill and J. R. Larus and A. Rogers and J. Saltz",
Title = "Efficient Support for Irregular Applications on
Distributed Memory Machines",
journal = "ACM SIGPLAN Notices",
YEAR = "1995",
pages = "68-79",
volume = "30",
number = "8"
}
@article{parti3,
Author = "J. Saltz and R. Mirchandaney and K. Crowley",
Title = "Run-Time Parallelization and Scheduling of Loops",
journal = "IEEE Trans. Computers",
YEAR = "1991",
pages = "604-612",
volume = "40",
number = "5"
}
@inproceedings{disz-lusk:wamtrace,
AUTHOR = "Terrence Disz and Ewing Lusk",
TITLE = "A Graphical Tool for Observing the Behavior of Parallel
Logic Programs",
BOOKTITLE = "Proceedings of the 1987 Symposium on Logic Programming",
YEAR = "1987",
PAGES = "46--53"
}
@inproceedings{gorlick-kesselman:gauge,
AUTHOR = "Michael Gorlick and Carl Kesselman",
TITLE = "Timing {Prolog} programs without Clocks",
BOOKTITLE = "Proceedings of the 1987 Symposium on Logic Programming",
YEAR = "1996",
publisher = "Birkhauser"
}
@TechReport( aztec,
Author = "Scott A. Hutchinson and John N. Shadid and Ray S. Tuminaro",
Title = "Aztec User's Guide Version 1.1",
Institution = "Sandia National Laboratories",
Month = Oct,
Year = 1995,
Number = "SAND95/1559"
)
@TechReport( aztec2,
Author = "Ray S. Tuminaro and Micheal Heroux and Scott A. Hutchinson and John N. Shadid",
Title = "Official {Aztec} User's Guide Version 2.1",
Institution = "Sandia National Laboratories",
Year = 1999,
)
@Book{taylor-chandy:pcn,
Author = "Chandy, M. and Taylor, S.",
Title = "An Introduction to Parallel Programming",
Year = 1991,
Publisher = "Jones and Bartlett"}
@Book{foster-taylor:strand,
Title = "Strand: New Concepts in Parallel Programming",
Author = "Ian Foster and Stephen Taylor",
Publisher = "Prentice-Hall",
Adress = " Englewood Cliffs, New Jersey",
Year = 1990}
@article{aurora,
AUTHOR = "E. Lusk and R. Butler and T. Disz and R. Olson and
R. Overbeek and R. Stevens and D.H.D. Warren and
A. Calderwood and P. Szeredi and S. Haridi and
P. Brand and M. Carlsson and A. Ciepielewski and
B. Hausman",
TITLE = "The Aurora OR-Parallel Prolog System",
JOURNAL = "New Generation Computing",
VOLUME = 7,
NUMBER = 3,
YEAR = 1990,
PAGES = "243--271"
}
@Techreport{roo,
Author = "E. Lusk and W. McCune and J. Slaney",
Title = "Roo---a Parallel Theorem Prover",
Institution = "Argonne National Laboratory",
Number = "MCS--TM--149",
Year = 1991}
@Techreport{heath-etheridge:vppp,
Author = "M. T. Heath and J. A. Etheridge",
Title = "Visualizing the Performance of Parallel Programs",
Institution = "Oak Ridge National Laboratory",
Number = "ORNL TM-11813",
Year = 1991}
@Techreport{chem:vis,
Author = "Ewing L. Lusk",
Title = "Performance Visualization for Parallel Programs",
Institution = "Argonne National Laboratory",
Number = "ANL/MCS--P287--0192",
Year = 1991,
Note = "(to appear in {\em Theoretica Chimica Acta})"
}
@Techreport{picltrace,
Author = "P.~H.~Worley",
Title = "A new {PICL} trace file format",
Institution = "Oak Ridge National Laboratory",
Number = "ORNL TM-12125",
Month = JUN,
Year = 1992}
@inproceedings{hideo,
AUTHOR = "Gary Olsen and Carl Woese and Ray Hagstrom and Hideo Matsuda
and Ross Overbeek",
TITLE = "Inference of Phylogenetic trees using maximum likelihood",
BOOKTITLE = "Proceedings of the First Intel Delta Applications
Workshop",
YEAR = "1992",
PAGES = "247--262"
}
@InProceedings(DW90,
Author= "M. Dryja and O. Widlund",
Title= "Towards a Unified Theory of Domain Decomposition Algorithms
for Elliptic Problems",
Booktitle= "Third International Symposium on Domain Decomposition
Methods",
Editor= "T. F. Chan and R. Glowinski
and J. P\'eriaux and O. B. Widlund",
Year= "1990",
Pages= "3-21",
Publisher= "SIAM",
Address= "Philadelphia",
Annote= "Additive {S}chwarz. Surveys recent (1989) results; some
comments on 3-d and how many approaches may be cast in
the form of additive {S}chwarz-subspace form. 58
references, good introduction to the theory. No
computations",
Key= "DryjaWidlund90 !AS")
@UnPublished(rosing,
Author= "Matt Rosing and Joel Saltz",
Title= "Low Latency Messages on Distributed Memory Multiprocessors",
Key= "LowLatency",
Note= "manuscript, 1992")
@techreport{jp:incomplete,
AUTHOR = "Mark T. Jones and Paul E. Plassmann",
TITLE = "An Improved Incomplete {C}holesky Factorization",
INSTITUTION = "Argonne National Laboratory",
ADDRESS = "Argonne, IL",
TYPE = "Preprint",
NOTE = "(to appear in {\em ACM Trans. on Mathematical Software, 1995})",
NUMBER = "MCS-P206-0191",
YEAR = "1991",
KEY = "jones" }
@incollection{jp:ima,
AUTHOR = "Mark Jones and Paul Plassmann",
title = "The Efficient Parallel Iterative Solution
of Large Sparse Linear Systems",
booktitle = "Graph Theory and Sparse Matrix Computation",
publisher = "Springer-Verlag",
series = "The IMA Volumes in Mathematics and Its Applications",
editor = "Alan George and John Gilbert and Joseph W.H.~Liu",
volume = "56",
year = "1993",
pages="229--245"
}
@Article{ pw98,
AUTHOR = "M. Pernice and H. F. Walker",
TITLE = "{NITSOL}: A {Newton} Iterative Solver for Nonlinear Systems",
journal = "SIAM J. Sci. Stat. Comput.",
year = 1998,
volume = 19,
pages = "302--318"
}
@TechReport( ysmp83,
KEY = "Eisenstat",
AUTHOR = "S.~C.~Eisenstat and H.~C.~Elman and M.~H.~Schultz and
A.~H.~Sherman",
TITLE = "The (New) {Y}ale {S}parse {M}atrix {P}ackage",
INSTITUTION= "Department of Computer Science, Yale University",
NUMBER = "YALE/DCS/RR-265",
MONTH = APR,
YEAR = "1983"
)
@inbook( ysmp84,
AUTHOR = "S.~C.~Eisenstat and H.~C.~Elman and M.~H.~Schultz and
A.~H.~Sherman",
chapterTITLE = "The (New) {Y}ale {S}parse {M}atrix {P}ackage",
title = "Elliptic Problem Solvers II",
publisher = "Academic Press",
pages = "45--52",
editors = "G. Birkhoff and A. Schoenstadt",
YEAR = "1984"
)
@TechReport{ sparsekit,
KEY = "Saad",
AUTHOR = "Youcef Saad",
TITLE = "{SPARSKIT}, a basic tool kit for sparse matrix computations",
INSTITUTION= "Center for Supercomputing Research and Development,
University of Illinois at Urbana-Chanpaign",
NUMBER = "1029",
YEAR = 1990
}
@TechReport( pde-user-ref,
Author = "Barry F. Smith",
Title = "Extensible {PDE} Solvers Package Users Manual",
Institution = "Argonne National Laboratory",
Month = SEP,
Year = 1994,
Number = "ANL-93/40",
Key = "Smith94 ! PDE"
)
@TechReport( bs-user-ref,
Author = "Mark T. Jones and Paul E. Plassmann",
Title = "{BlockSolve95} Users Manual: Scalable Library Software for
the Parallel Solution of Sparse Linear Systems",
Institution = "Argonne National Laboratory",
Month = DEC,
Year = 1995,
Number = "ANL-95/48"
)
@TechReport( snes-user-ref,
Author = "William D. Gropp and Lois Curfman McInnes and Barry F. Smith",
Title = "Using the {S}calable {N}onlinear {E}quations {S}olvers Package",
Institution = "Argonne National Laboratory",
Month = Feb,
Year = 1995,
Number = "ANL/MCS-TM-193",
Key = "GroppMcInnesSmith95 ! SNES"
)
@TechReport( sles-user-ref,
Author = "William D. Gropp and Barry F. Smith",
Title = "{S}implified {L}inear {E}quation {S}olvers Users Manual",
Institution = "Argonne National Laboratory",
Month = MAR,
Year = 1993,
Number = "ANL-93/8",
Key = "GroppSmith93 ! SLES"
)
@TechReport( chameleon-user-ref,
Author = "William D. Gropp and Barry F. Smith",
Title = "Chameleon Parallel programming tools Users Manual",
Institution = "Argonne National Laboratory",
Month = MAR,
Year = 1993,
Number = "ANL-93/23",
Key = "GroppSmith93 ! Chameleon"
)
@Article( euclid2,
Author = "D. Hysom and A. Pothen",
Title = "A Scalable Parallel Algorithm For Incomplete Factor Preconditioning",
Journal = "SIAM J. Sci. Comput.",
Volume = 22,
Number = 6,
Pages = "2194--2215"
)
@TechReport( euclid1,
Author = "D. Hysom and A. Pothen",
Title = "Euclid User Manual (A Scalable {ILU} Preconditioning Library for the Parallel Solution of Sparse Linear Systems)",
Institution = "Old Dominion University",
Year = "2001"
)
@TechReport( ksp-user-ref,
Author = "William D. Gropp and Barry F. Smith",
Title = "Users Manual for {KSP}: Data-Structure-Neutral Codes Implementing {K}rylov Space Methods",
Institution = "Argonne National Laboratory",
Month = AUG,
Year = 1993,
Number = "ANL-93/30",
Key = "GroppSmith93 ! KSP"
)
@TechReport( mpi-chameleon,
Author = "William D. Gropp and Ewing Lusk",
Title = "A Test Implementation of the {MPI} Draft Message-Passing
Standard",
Institution = "Argonne National Laboratory",
Month = DEC,
Year = 1992,
Number = "ANL-92/47",
Key = "GroppLusk92 ! MPI"
)
@TechReport( blockcomm-fortran,
Author = "William D. Gropp",
Title = "Block{C}omm for {F}ortran",
Institution = "Argonne National Laboratory",
Month = MAY,
Year = 1993,
Number = "ANL-93/00 (to appear)",
Key = "Gropp93 ! BlockComm"
)
@TechReport( autodocument,
Author = "William D. Gropp",
Title = "Automatic documentation of {C} programs",
Institution = "Argonne National Laboratory",
Month = MAY,
Year = 1993,
Number = "ANL-93/00",
Key = "Gropp93 ! Autodoc"
)
@TechReport( zipcode,
Author = "Anthony Skjellum and Steven G. Smith and Charles H Still and
Alvin P. Leung and Manfred Morari",
Title = "The {Z}ipcode message-passing system",
Institution = "Lawrence Livermore National Laboratory",
Month = SEP,
Year = 1992,
Number = "Unpublished",
Key = "Skjellum92 ! Zipcode" )
@Article( paragraph,
Author = "Michael T. Heath and Jennifer Etheridge Finger",
Title = "Visualizing performance of parallel programs",
Journal = "IEEE Software",
Volume = 8,
Number = 5,
Month = SEP,
Year = 1991,
Pages = "29--39",
Key = "Heath91 ! Paragraph" )
@article( gropp90,
Author = "William Gropp and Edward Smith",
Title = "Computational Fluid Dynamics on Parallel Processors",
Journal = "Computers and Fluids",
Volume = 18,
Year = 1990,
Pages = "289--304",
Key = "Gropp90 ! performance" )
@article( foster92,
Author = "Ian Foster and William Gropp and Rick Stevens",
Title = "The parallel scalability of the spectral transform method",
Journal = "Monthly Weather Review",
Volume = 120,
Year = 1992,
Pages = "835--850",
Key = "Foster92 ! performance" )
@INBOOK{fgn,
AUTHOR="R. Freund and G. H. Golub and N. Nachtigal",
TITLE="Iterative Solution of Linear Systems",
SERIES="Acta Numerica",
YEAR="1992",
PUBLISHER="Cambridge University Press",
PAGES="57--100"
}
@TechReport( nachtigal90,
Author = "No{\"e}l M. Nachtigal and Satish C. Reddy and Lloyd N. Trefethen",
Title = "How Fast are Nonsymmetric Matrix Iterations?",
Institution = "Massachusetts Institute of Technology",
Month = MAR,
Year = 1990,
Number = "90-2",
Key = "Nachtigal | Krylov"
)
@article{nachtigal1992fnm,
title={How Fast are Nonsymmetric Matrix Iterations?},
author={Nachtigal, N.M. and Reddy, S.C. and Trefethen, L.N.},
journal={SIAM Journal on Matrix Analysis and Applications},
volume={13},
pages={778},
year={1992},
publisher={SIAM}
}
@techreport{embree1999descriptive,
title={How descriptive are {GMRES} convergence bounds},
author={Embree, M.},
year={1999},
number={08},
institution={Oxford University Computing Laboratory}
}
@Article{ vorst92,
author = "H. van der Vorst",
title = "Bi-{CGSTAB}: A fast and smoothly converging varient of
{Bi-CG} for the solution of nonsymmetric linear systems",
journal = "SIAM J. Sci. Stat. Comput.",
year = 1992,
volume = 13,
pages = "631--644"
}
@Article{ eisenstat81,
author = "S. Eisenstat",
title = "Efficient Implementation of a Class of {CG} Methods",
journal = "SIAM J. Sci. Stat. Comput.",
year = 1981,
volume = 2,
pages = "1--4"
}
n
@Manual( ibm-essl,
Title = "{E}ngineering and {S}cientific {S}ubroutine {L}ibrary Version 2:
Guide and Reference",
Organization = "IBM",
Year = 1992,
Key = "IBM-ESSL"
)
@Manual( IBM-EUI,
Title = "{IBM} {AIX} Parallel Environment Parallel Programming Subroutine
Reference Release 2.0",
Organization = "IBM",
Month = JUN,
Year = 1994,
Key = "IBM-EUI"
)
@Manual( IBM-EUIH,
Title = "Using {EUIH}: An Experimental {EUI} Implementation",
Organization = "IBM",
Author = "Peter Hochschild",
Year = 1993,
Key = "IBM-EUIH"
)
@TechReport{ MPI,
Title = "Document for a Standard Message-Passing Interface",
Author = "Message Passing Interface Forum",
Institution = "University of Tennessee",
Number = "CS-93-214",
Month = NOV,
Year = 1993,
Key = "MPI Standard"
}
@Unpublished{ mpi-final-web,
author = "Message Passing Interface Forum",
title = "{MPI}: A Message-Passing Interface Standard",
note = "http://www.mcs.anl.gov/mpi/mpi-report/mpi-report.html",
year = 1994,
month = MAY
}
@Book{hockney-jesshope,
author = "R. W. Hockney and C. R. Jesshope",
title = "Parallel Computers 2",
publisher = "Adam Hilger",
year = "1988"
}
@Book{cm-fortran,
author = "{Thinking Machines Corporation}",
title = "Users Manual for CM-Fortran",
publisher = "Thinking Machines Corporation",
year = 1993
}
@TechReport{ Chang93,
Title = "Experiments and Bounds on Block Diagonal Preconditioning",
Author = "Mark Yan-Ming Chang and Martin H. Schultz",
Institution = "Yale Department of Computer Science",
Number = "YALEU/DCS/RR-994",
Month = NOV,
Year = 1993,
Key = "BDD|diag" }
@inproceedings{gropplevine93,
AUTHOR = "N. Galbreath and W. Gropp and D. Levine",
TITLE = "Applications-Driven Parallel {I/O}",
BOOKTITLE = "Proceedings of Supercomputing '93",
YEAR = "1993",
PAGES = "462--471"
}
@book{ Siegle85,
AUTHOR = "H. J. Siegel",
TITLE = "Interconnection Networks for Large Scale Parallel Processing",
PUBLISHER = "Lexington Books",
YEAR = 1985,
KEY = "Network Comparison"
}
@article{ Lawrie75,
AUTHOR = "D. H. Lawrie",
TITLE = "Access and alignment of data in an array processor",
JOURNAL = "IEEE Transactions on Computers",
VOLUME = "C-24",
NUMBER = 12,
MONTH = DEC,
YEAR = 1975,
PAGES = "1145--1155",
KEY = "Omega Network"
}
@book{ Lamport86,
AUTHOR = "Leslie Lamport",
TITLE = "{LaTeX}: A document preparation system",
PUBLISHER = "Addison-Wesley",
YEAR = 1986,
KEY = "Latex Manual"
}
@TechReport( tohtml,
Author= "William Gropp",
Title= "Users Manual for tohtml: Producing true hypertext
documents from {LaTeX}",
Institution= "Argonne National Laboratory",
Number= "ANL/MCS-TM-00",
Month= JAN,
Year= "1995",
Key= "tohtml" )
@TechReport( doctext,
Author= "William Gropp",
Title= "Users Manual for doctext:
Producing documentation from {C} source code",
Institution= "Argonne National Laboratory",
Number= "ANL/MCS-TM-00",
Month= JAN,
Year= "1995",
Key= "doctext" )
@TechReport( bfort,
Author= "William Gropp",
Title= "Users Manual for bfort:
Producing {F}ortran interfaces to {C} source code",
Institution= "Argonne National Laboratory",
Number= "ANL/MCS-TM-208",
Month= MAR,
Year= "1995",
Key= "doctext" )
@InProceedings{ gropp-lusk:unix-tools,
Author= "William Gropp and Ewing Lusk",
Title= "Scalable {U}nix Tools on Parallel Processors",
Booktitle= "Proceedings of the 1994 Scalable High Performanc Computing
Conference",
Publisher= "IEEE",
Pages = "56--62"
}
@inproceedings{jp:bell_prize,
AUTHOR = "Mark Jones and Paul Plassmann",
TITLE = "Solution of Large, Sparse Systems of Linear Equations
in Massively Parallel Applications",
booktitle = "Proceedings of Supercomputing '92",
publisher = "IEEE Computer Society Press",
YEAR = "1992",
Pages = "551--560"
}
@comment{WEB, CWEB references (for doctext)}
@TechReport{ web,
author = "Donald E. Knuth",
title = "The {\tt WEB} system of structured documentation",
institution = "Computer Science Department, Stanford University",
year = 1983,
number = 980,
month = SEP
}
@Article{ literatepgm,
author = "Donald E. Knuth",
title = "Literate Programming",
journal = "Computer Journal",
year = 1984,
volume = 27,
number = 2,
pages = "91--111"
}
@Unpublished{ cweb-code,
author = "Silvio Levy and Donald E. Knuth",
title = "CWEB",
note = "CWEB is available at ftp://pip.shsu.edu/tex-archive/web/c\_cpp/cweb"
}
@Article( componentware:94,
AUTHOR = "Jon Udell",
TITLE = "Componentware",
JOURNAL = "Byte",
VOLUME = "May",
PAGES = "46-56",
YEAR = 1994,
KEY = "Udell94 ! componentware"
)
@article{jp:scalable,
AUTHOR = "Mark Jones and Paul Plassmann",
TITLE = "Scalable Iterative Solution of Sparse Linear Systems",
Journal = "Parallel Computing",
Volume = "20",
Number = "5",
Month = "May",
YEAR = "1994",
Pages = "753--773"
}
@article{jp:pcolor,
AUTHOR = "Mark T. Jones and Paul E. Plassmann",
Title = "A Parallel Graph Coloring Heuristic",
journal = "SIAM J. Sci. Comput.",
Volume = "14",
Number = "3",
Pages = "654-669",
Year = "1993",
}
@TechReport( block_solve,
AUTHOR = "Mark T. Jones and Paul E. Plassmann",
TITLE = "{B}lock{S}olve v1.1: Scalable Library Software for
the Parallel Solution of Sparse Linear Systems",
INSTITUTION = "Argonne National Laboratory",
YEAR = 1992,
NUMBER = "ANL-92/46",
KEY = "JonesPlassmann92 ! block_solve"
)
@book{ optguide93,
TITLE = "Optimization Software Guide",
AUTHOR = "Jorge J. Mor\'{e} and Stephen J. Wright",
PUBLISHER = "SIAM Publications",
ADDRESS = "Philadelphia",
YEAR = 1993,
}
@inproceedings{ more84,
AUTHOR = "Jorge J. Mor\'{e} and Danny C. Sorenson and
Burton S. Garbow and Kenneth E. Hillstrom",
TITLE = "The {MINPACK} Project",
BOOKTITLE = "Sources and Development of Mathematical Software",
EDITOR = "Wayne R. Cowell",
YEAR = 1984,
PAGES = "88-111"
}
@inproceedings{ supercond,
AUTHOR = "Lois Curfman Mc{I}nnes and Mario Palumbo",
TITLE = "Parallel Solution of the Anisotropic
{G}inzburg-{L}andau Model",
BOOKTITLE = "Proceedings of the Toward Teraflop Computing and New
Grand Challenge Applications Conference",
MONTH = Feb,
YEAR = "1994",
KEY = "McInnesPalumbo94 ! superconductivity "
}
@Article( steihaug:83,
AUTHOR = "Trond Steihaug",
TITLE = "The Conjugate Gradient Method and Trust Regions in
Large Scale Optimization",
JOURNAL = "SIAM J. Numer. Anal.",
VOLUME = 20,
YEAR = 1983,
PAGES = "626-637",
KEY = "steihaug92 ! trust_region"
)
@Unpublished( preosti:93,
AUTHOR = "Gianfranco Preosti",
TITLE = " ",
NOTE = "Unpublished information, {P}hysics {D}epartment,
{P}urdue {U}niversity",
YEAR = 1993,
KEY = "preosti93 ! GL-tilt3d"
)
@Unpublished( more:93,
AUTHOR = "Jorge J. Mor\'{e}",
TITLE = " ",
NOTE = "Unpublished information, {M}athematics and
{C}omputer {S}cience {D}ivision,
{A}rgonne {N}ational {L}aboratory",
YEAR = 1993,
KEY = "more93 ! MINPACK-2"
)
@TechReport( minpack2test,
AUTHOR = "Brett M. Averick and Richard G. Carter and
Jorge J. Mor\'{e}",
TITLE = "The {MINPACK-2} Test Problem Collection",
INSTITUTION = "Argonne National Laboratory",
YEAR = 1991,
NUMBER = "ANL/MCS-TM-150",
KEY = "more91 ! MINPACK-2"
)
@TechReport{ hohmann:94,
AUTHOR = "Andreas Hohmann",
TITLE = "Object Oriented Design of Multilevel {N}ewton and
Continuation Methods",
INSTITUTION = "Konrad-Zuse-Zentrum fur Informationstechnik Berlin",
YEAR = 1994,
NUMBER = "SC-94-4",
KEY = "Hohmann94"
}
@TechReport{ meza:94,
AUTHOR = "Juan C. Meza",
TITLE = "{OPT}++: An Object-Oriented Class Library for
Nonlinear Optimization",
INSTITUTION = "Sandia National Laboratory",
YEAR = 1994,
NUMBER = "SAND94-8225",
KEY = "Meza94"
}
@book{dennis:83,
AUTHOR = "Dennis, Jr., J. E. and Robert B. Schnabel",
TITLE = "Numerical Methods for Unconstrained Optimization and
Nonlinear Equations",
PUBLISHER = "Prentice-Hall",
ADDRESS = "Englewood Cliffs, NJ",
YEAR = 1983}
}
@TechReport{ more:92,
AUTHOR = "Jorge J. Mor\'{e} and David Thuente",
TITLE = "Line search algorithms with guaranteed sufficient decrease",
INSTITUTION = "Mathematics and Computer Science Division, Argonne National Laboratory",
YEAR = 1992,
NUMBER = "MCS-P330-1092",
}
@Article{ brownsaad:90,
author = "Peter N. Brown and Youcef Saad",
title = "Hybrid {K}rylov Methods for Nonlinear Systems of Equations",
journal = "SIAM J. Sci. Stat. Comput.",
year = 1990,
volume = 11,
pages = "450-481"
}
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author = "William Gropp and Ewing Lusk and Anthony Skjellum",
title = "Using MPI: Portable Parallel Programming with the Message
Passing Interface",
publisher = "MIT Press",
year = 1994
}
@Book{using-mpi2,
author = "William Gropp and Ewing Lusk and Rajeev Thakur",
title = "Using MPI 2: Advanced Features of the Message Passing Interface",
publisher = "MIT Press",
year = 1999
}
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author="Magnus R. Hestenes and Eduard Steifel",
title="Methods of Conjugate Gradients for Solving Linear Systems",
journal="J. Research of the National Bureau of Standards",
year=1952,
volume=49,
pages="409-436"}
@article{ss:86,
author="Youcef Saad and Martin H. Schultz",
title="{GMRES}: A Generalized Minimal Residual Algorithm
for Solving Nonsymmetric Linear Systems",
journal = "SIAM J. Sci. Stat. Comput.",
year=1986,
volume=7,
pages="856-869"}
@article{so:89,
author="Peter Sonneveld",
title="{CGS}, A Fast {L}anczos-type Solver for Nonsymmetric Linear
Systems",
journal = "SIAM J. Sci. Stat. Comput.",
year=1989,
volume=10,
pages="36-52"}
@article{v:92,
author="{H. A.} {van der Vorst}",
title="{B}i{CGSTAB}: A fast and smoothly converging variant
of {B}i{CG} for the solution of nonsymmetric linear
systems",
journal = "SIAM J. Sci. Stat. Comput.",
volume=13,
year=1992,
pages="631-644"}
@article{f:93,
author="Roland W. Freund",
title="A Transpose-Free Quasi-Minimal Residual Algorithm for
Non-{H}ermitian Linear Systems",
journal = "SIAM J. Sci. Stat. Comput.",
volume=14,
year=1993,
pages="470-482"}
@article{ish:89,
author="S. Ishizuka",
title="An Experimental Study on Extinction and
Stablity of Tubular Flames",
journal="Combustion and Flame",
volume=75,
year=1989,
pages="367-379"}
@book{williams89,
TITLE = "Combustion Theory, The
Fundamental Theory of Chemically Reacting Flow Systems",
AUTHOR= "F.A. Williams",
PUBLISHER = "Addison-Wesley",
YEAR = 1989,
pages = "367-379"}
@book{RA75,
author = {R. Aris},
title = {The Mathematical Theory of Diffusion and
Reaction in Permeable Catalysts},
publisher = {Oxford},
year = {1975}
}
@book{Bebernes89,
author = {J. Bebernes and D. Eberly},
title = {Mathematical Problems from Combustion Theory},
publisher = {Springer-Verlag},
series = {Applied Mathematical Sciences 83},
year = {1989}
}
@inproceedings{Kikuchi89,
author = {F. Kikuchi},
booktitle = { Computing Methods in Applied Sciences and Engineering},
editor = {R. Glowinski and J. L. Lions},
publisher = {Springer-Verlag},
series = {Lecture Notes in Mathematics},
title = {Finite element approximations to bifurcation
problems of turning point type},
year = {1977}
}
@article{RG85,
author="R. Glowinski and H.B. Keller and L. Reinhart",
title="Continuation-conjugate Gradient Methods fo the Least Squares
Solution of Nonlinear Boundary Problems",
journal = "SIAM J. Sci. Stat. Comput.",
volume=6,
year=1985,
pages="793-832"}
@InProceedings{whitfield91,
author = "D. Whitfield and L. Taylor",
title = "Discretized {N}ewton-Relaxation Solution of High
Resolution Flux-Difference Split Schemes",
booktitle = "Proceedings of the AIAA Tenth Computational Fluid Dynamics Conference",
misc = "AIAA-91-1539",
pages = "134-145",
year = 1991,
}
@INPROCEEDINGS{Quinlan1,
AUTHOR= "M. Lemke and D. Quinlan",
TITLE= "P++, a {C}++ Virtual Shared Grids Based Programming
Environment for Architecture-Independent Development of
Structured Grid Applications",
BOOKTITLE= "CONPAR/VAPP V, Lecture Notes in Computer Science",
PUBLISHER= "Springer Verlag",
YEAR= "1992"
}
@INPROCEEDINGS{Quinlan2,
AUTHOR= "R. Parsons and D. Quinlan",
TITLE= "A++/{P}++ Array Classes for Architecture Independent Finite
Difference Computations",
BOOKTITLE= "Proceedings of the Second Annual Object-Oriented Numerics
Conference",
YEAR= "1994"
}
% ***** Overview of functionality in Diffpack
@inbook{DPoverview,
author = "Bruaset, A. M. and Langtangen, H. P.",
booktitle = "Mathematical Models and Software Tools in Industrial
Mathematics",
title = "A Comprehensive Set of Tools for Solving Partial Differential
Equations; {Diffpack}",
publisher = "Birkh{\"{a}}user",
pages = "61--90",
year = 1997}
% ***** Short overview of Diffpack
@incollection{DPoverview2,
author = "Bruaset, A. M. and Langtangen, H. P.",
editor = "A. Sydow",
booktitle = "Proceedings of the 15th IMACS World Congress
on Scientific Computation, Modelling and Applied Mathematics",
title = "Diffpack: A Software Environment for Rapid Prototyping of
{PDE} Solvers",
pages = "553--558",
volume = 4,
year = 1997}
% ***** Comprehensive documentation of Diffpack and
% associated numerical methods:
@Book{DPbook,
author = "H. P. Langtangen",
title = "Numerical Solution of Partial Differential Equations;
Models, Algorithms and Software. Part I",
series = "Lecture Notes in Computational Science and Engineering",
publisher = "Springer-Verlag",
year = "1998"
}
% ***** Design issues of the linear solvers in Diffpack, serves also as a
% collection of examples on O-O in numerical computing
@article{AmbHpl97a,
author = "A. M. Bruaset and H. P. Langtangen ",
title = "Object-Oriented Design of Preconditioned Iterative
Methods in {Diffpack}",
journal = "Transactions on Mathematical Software",
volume = {23 },
pages = "50--80",
year = {1997}
}
@misc{DPURL,
author = "{Diffpack Web page}",
howpublished = "\url{http://www.diffpack.com}"
}
% ***** General intro to object-oriented numerics for "FORTRAN programmers"
@incollection{OONintro,
author = "Arge, E. and Bruaset, A. M. and H. P. Langtangen",
editor = "D{\ae}hlen, M. and Tveito, A.",
booktitle = "Mathematical Models and Software Tools in Industrial Mathematics",
title = "Object-Oriented Numerics",
publisher = "Birkh{\"{a}}user",
year = 1997}
% ***** Efficiency comparison: BLAS 1, Diffpack, C,
% and finite element applications (F77 vs Diffpack)
@incollection{DPefficiency,
author = "Arge, E. and Bruaset, A. M. and Calvin, P. B. and
Kanney, J. F. and Langtangen, H. P. and Miller, C. T.",
editor = "D{\ae}hlen, M. and Tveito, A.",
booktitle = "Mathematical Models and Software Tools in Industrial
Mathematics",
title = "On the Efficiency of {C++} in Scientific Computing",
publisher = "Birkh{\"{a}}user",
pages = "91--118",
year = 1997}
% ***** Parallel concept in Diffpack:
@incollection{DPparallel,
author = "A.~M.~Bruaset and X. Cai and H. P. Langtangen and A. Tveito",
editor = "Y. Ishikawa and R. R. Oldehoeft and J. V. W. Reynders and M. Tholburn",
booktitle = "Scientific Computing in Object-Oriented Parallel Environments",
title = "Numerical Solution of {PDE}s on Parallel Computers Utilizing
Sequential Simulators",
publisher = "Springer--Verlag",
series = "Lecture Notes in Computer Science",
pages = "161--168",
year = 1997}
% ***** DD and ML methods in Diffpack:
@incollection{DPDDML,
author = "A.~M.~Bruaset and H. P. Langtangen and G. W. Zumbusch",
editor = "P. Bj{\o}rstad and M. Espedal and D. Keyes",
booktitle = "Proceedings of the 9th Conference on Domain
Decomposition",
title = "Domain decomposition and multilevel methods in Diffpack",
year = 1997}
@inproceedings{bsca98,
author= "David L. Bruhwiler and Svetlana G. Shasharina and John R. Cary and David Alexander",
title= "Design and Implementation of an Object Oriented C++ Library for Nonlinear Optimization",
booktitle= "Proceedings of the SIAM Workshop on Object Oriented Methods for
Inter-operable Scientific and Engineering Computing",
editor= "Mike Henderson et al.",
pages= "165-173",
year= "1998"
}
@BOOK{scalapack-user-guide,
AUTHOR = "L. S. Blackford and J. Choi and A. Cleary and E. D'Azevedo and
J. Demmel and I. Dhillon and J. Dongarra and S. Hammarling and
G. Henry and A. Petitet and K. Stanley and D. Walker and R. C. Whaley",
TITLE = "Sca{LAPACK} Users' Guide",
PUBLISHER = "SIAM",
ADDRESS = "Philadelphia, PA",
YEAR = 1997
}
@INPROCEEDINGS{KEYES99,
AUTHOR = "D. E. Keyes",
TITLE = "How Scalable is Domain Decomposition in Practice?",
BOOKTITLE = "Proceedings of the 11th International Conference on
Domain Decomposition Methods",
EDITOR = "C.-H. Lai et al.",
PUBLISHER = "Domain Decomposition Press, Bergen",
NOTE = "To appear",
YEAR = "1999" }
@article{fun3d,
author="W. K. Anderson and D. L. Bonhaus",
title="An implicit upwind algorithm for computing turbulent flows on unstructured grids",
journal="Computers and Fluids",
year=1994,
volume=23,
pages="1--21"
}
% -------------------------------------------------------------------------
% -------------------------------------------------------------------------
@Article(torczon,
Author= "Dennis, Jr., J. E. and V.~Torczon",
Title= "Direct Search Methods on Parallel Machines",
Journal= "SIAM J. Optimization",
Volume= 1,
Pages= "448--474",
Year= 1991,
Key= "Torczon !PDS")
@InProceedings{WT91,
author = "D. L. Whitfield and L. K. Taylor",
title = "Discretized {N}ewton-Relaxation Solution of High
Resolution Flux-Difference Split Schemes",
booktitle = "Proceedings of the AIAA Tenth Annual Computational Fluid Dynamics Conference",
misc = "AIAA-91-1539",
pages = "134-145",
year = 1991,
}
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author="S. C. Eisenstat and H. F. Walker",
title="Choosing the forcing terms in an inexact {N}ewton method",
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volume=17,
year=1996,
pages="16--32"
}
@Book{thi93,
author = "{Thinking Machines Corporation}",
title = "Users Manual for CM-Fortran",
publisher = "Thinking Machines Corporation",
year = 1993
}
@Book{mortonmayers94,
author = "K. W. Morton and D. F. Mayers",
title = "Numerical Solution of Partial Differential Equations",
publisher = "Press Syndicate of the University of Cambridge",
year = 1994
}
@Book{heath97,
author = "Michael T. Heath",
title = "Scientific Computing: An Introductory Survey",
publisher = "McGraw Hill",
year = 1997
}
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author = "C. S. Ierotheou and S. P Johnson and M. Cross and P. F. Leggett",
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volume = 22,
pages = "197-226",
year = 1996
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@Unpublished{ nastran-web-page,
Author = "{MSC Software Corporation}",
title = "{NASTRAN} {W}eb page",
note = "See {\tt http://www.mechsolutions.com\-/products\-/nastran/}"
}
@Book{hpf,
author = "C. H. Koelbel and D. B. Loveman and R. S. Schreiber and G. L. Steele and M. E. Zosel",
title = "The High Performance Fotran Handbook",
publisher = "MIT Press",
year = "1994"
}
@inproceedings{keyes98,
AUTHOR = "D. E. Keyes",
TITLE = "Trends in Algorithms for Nonuniform Applications on Hierarchical Distributed Architectures",
BOOKTITLE = "Proceedings of the Workshop on Computational Aerosciences for the 21st Century",
EDITORS = "M. D. Salas and W. K. Anderson",
PPUBLISHER = "Elsevier",
YEAR = "1998"
}
@inproceedings{cca99,
AUTHOR = "R. Armstrong and D. Gannon and A. Geist and K. Keahey and
S. Kohn and L. C. McInnes and S. Parker and B. Smolinski",
TITLE = "Toward a Common Component Architecture for High-Performance
Scientific Computing",
BOOKTITLE = "Proceedings of {High Performance Distributed Computing}",
pages = "115--124",
YEAR = "1999",
}
@inproceedings{pooma-atlas,
author = "S. Atlas and S. Banerjee and J. C. Cummings and P. J. Hinker and
M. Srikant and J. V. W. Reynders and M. Tholburn",
title = "{POOMA}: A High-Performance Distributed Simulation Environment for
Scientific Applications",
year = 1995,
month = "December",
Booktitle = "Supercomputing '95 Proceedings",
}
% ---------------------------------------------------------------------------------
% New bib entries for CRPC paper
@misc {
mgnet-web-page,
author = "Craig C. Douglas",
title = "{MGNet Web page}",
note = "See {\tt http://\-www.mgnet.org}"
}
@misc {
dagh-web-page,
author = "M. Parashar and J. C. Browne",
title = "{DAGH Web page}",
note = "\url{http://www.caip.rutgers.edu/~parashar/DAGH}"
}
@misc {
parasol-web-page,
key = "PARASOL",
title = "{PARASOL Web page}",
note = "See {\tt http://\-www.genias.de/\-projects/\-parasol}"
}
@misc {
pooma-web-page,
author = "{POOMA Web page}",
note = "See {\tt http://\-www.acl.lanl.gov/pooma}"
}
@misc {
mudpack-web-page,
author = "John C. Adams",
title = "{MUDPACK Web page}",
note = "See {\tt http://\-www.scd.ucar.edu/\-css/\-software/\-mudpack}"
}
@misc {
pellpack-web-page,
author = "Elias Houstis and John Rice and Apostolos Hadjidimos",
title = "{Parallel ELLPACK Web page}",
note = "See {\tt http://\-www.cs.purdue.edu/\-research/\-cse/\-pellpack/}"
}
@inproceedings{pellpack95,
AUTHOR = "E. N. Houstis and S. B. Kim and S. Markus and P. Wu and
N. E. Houstis and A.C. Catlin and S. Weerawarana and T.S. Papatheodorou",
TITLE = "Parallel {ELLPACK} Elliptic {PDE} Solvers",
BOOKTITLE = "Proceedings of INTEL Supercomputer User's Group Conference",
ADDRESS = "Albuquerque, NM",
YEAR = "1995",
}
@misc {
nhse-web-page,
author = "{National High-Performance Software Exchange Web page}",
note = "See {\tt http://\-www.nhse.org}"
}
@misc {
doug-web-page,
author = "Mark J. Hagger and Linda Stals",
title = "{DOUG Web Page}",
note = "See {\tt http://\-www.maths.bath.ac.uk/\~{ }parsoft/\-doug/}"
}
@TECHREPORT{doug97,
AUTHOR="Mark J. Hagger",
TITLE="Automatic Domain Decomposition on Unstructured Grids {(DOUG)}",
INSTITUTION="Mathematical Sciences, University of Bath",
YEAR="1997",
NUMBER="9706",
NOTE= "Advances in Computational Mathematics (to appear)"
}
@misc {
ug-web-page,
author = "{UG Web Page}",
note = "See {\tt http://\-cox.iwr.uni-heidelberg.de/\~{ }ug/}"
}
@Article{ug97,
author = "P. Bastian and K. Birken and K. Johannsen and S. Lang and N. Neuss and
H. Rentz-Reichert and C. Wieners",
title = "{UG} -- A Flexible Software Toolbox for Solving Partial Differential Equations",
journal = "Computing and Visualization in Science",
year = "1997",
volume = "",
pages = ""
}
@misc {
vecfem-web-page,
author = "Lutz Grosz",
title = "{VECFEM Web Page}",
note = "See {\tt http://\-wwwmaths.anu.edu.au/\-\~{ }vecfem/}"
}
@misc{atlas-web-page,
author = {R. Clint {Whaley et al.}},
title = {{ATLAS Web Page}},
howpublished = {\url{http://math-atlas.sourceforge.net}}
}
@misc {fenics-web-page,
author = "Todd Dupont and Johan Hoffman and Johan Jansson and Claes Johnson and Robert C. Kirby and Matthew Knepley and Mats Larson and Anders Logg and Ridgway Scott",
title = "{FEniCS Web Page}",
note = "\url{http://www.fenicsproject.org}",
year = "2005"
}
@misc{matlab-web-page,
author = {{The} {MathWorks}},
title = {Matlab},
note = {\url{http://www.mathworks.com}}
}
@misc {
phipac-web-page,
author = "J. A. Bilmes and K. Asanovic and R. Vudoc and S. Iyer and
J. Demmel and C. Chin and D. Lam",
title = "{PHiPAC Web Page}",
note = "See {\tt http://\-www.icsi.berkeley.edu/\-\~{ }bilmes/\-phipac/}"
}
@inproceedings{kelp,
Author = "Stephan J. Fink and Scott B. Baden and Scott R. Kohn",
title = "Flexible Communication Mechanisms for Dynamic Structured Applications",
BOOKTITLE = "Irregular '96",
YEAR = "1996"
}
@Unpublished{ kelp-web-page,
author = "Scott Baden",
title = "{KeLP} {W}eb page",
note = "See {\tt http://\-www-cse.ucsd.edu/\-groups/\-hpcl/\-scg/\-kelp/}",
}
@inproceedings {
hk99,
author = "R. Hornung and S. Kohn",
title = "The Use of Object-Oriented Design Patterns in the {SAMRAI}
Structured {AMR} Framework",
booktitle = "Proceedings of the SIAM Workshop on Object-Oriented Methods
for Inter-Operable Scientific and Engineering Computing",
pages = "235-244",
year = 1999,
note = "See \url{http://www.llnl.gov/CASC/samrai}"
}
@Unpublished{samrai-web-page,
title = "{SAMRAI} {W}eb Page",
author = "Scott Kohn and Xabier Garaiza and Rich Hornung and Steve Smith",
note = "See {\tt http://www.llnl.gov/\-CASC/SAMRAI}",
}
@Misc{overture-web-page,
author = "William Henshaw and Kyle Chand",
title = "{Overture} {W}eb page",
howpublished = "\url{http://www.llnl.gov/CASC/Overture}"
}
@INPROCEEDINGS{ overture99,
AUTHOR= "D.L. Brown and W.D. Henshaw and D.J. Quinlan",
TITLE= "Overture: An Object-Oriented Framework for Solving Partial Differential Equations
on Overlapping Grids",
PUBLISHER= "SIAM",
BOOKTITLE= "Proceedings of the SIAM Workshop on Object Oriented Methods for
Inter-operable Scientific and Engineering Computing",
year = 1999,
pages = "215-224",
note = "See \url{http://www.llnl.gov/CASC/Overture}"
}
@inProceedings{diffpack,
Author = "A.M. Bruaset and H.P. Langtangen",
Title = "A Comprehensive Set of Tools for Solving Partial
Differential Equations: {D}iffpack",
BOOKTITLE = "Numerical Methods and Software Tools in Industrial Mathematics",
Year = 1997,
pages = "61--90",
Publisher = "Birkhauser Press"}
@Article{Dongarra:1984:ILA,
author = "J. J. Dongarra and F. G. Gustavson and A. Karp",
title = "Implementing Linear Algebra Algorithms for Dense
Matrices on a Vector Pipeline Machine",
journal = "SIAM Review",
volume = "26",
number = "1",
pages = "91--112",
month = jan,
year = "1984",
coden = "SIREAD",
ISSN = "0036-1445 (print), 1095-7200 (electronic)",
mrclass = "65F10 (65F30)",
mrnumber = "85c:65032",
bibdate = "Mon Jan 20 1997",
abstract = "The authors examine common implementations of linear
algebra algorithms, such as matrix-vector
multiplication, matrix-matrix multiplication and the
solution of linear equations. The different versions
are examined for efficiency on a computer architecture
which uses vector processing and has pipelined
instruction execution. By using the advanced
architectural features of such machines, one can
usually achieve maximum performance, and tremendous
improvements in terms of execution speed can be seen
over conventional computers.",
acknowledgement = ack-nhfb,
classification = "723; 921",
journalabr = "SIAM Rev",
keywords = "computer programming --- Algorithms; dense matrices;
linear algebra algorithms; mathematical programming;
vector pipeline machine",
}
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author = "",
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% -----------------------------------------------------------------------
% Model coupling refs
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Use the contents of the CD to create your own design documents and reusable components. The CD contains: 23 patterns you can cut and paste into your own design documents; sample code demonstrating pattern implementation; complete Design Patterns content in standard HTML format, with numerous hyperlinked cross-references; accessed through a standard web browser; Java-based dynamic search mechanism, enhancing online seach capabilities; graphical user environment, allowing ease of navigation.
First published in 1995, this landmark work on object-oriented software design presents a catalog of simple and succinct solutions to common design problems. Created by four experienced designers, the 23 patterns contained herein have become an essential resource for anyone developing reusable object-oriented software. In response to reader demand, the complete text and pattern catalog are now available on CD-ROM. This electronic version of Design Patterns enables programmers to install the book directly onto a computer or network for use as an online reference for creating reusable object-oriented software.
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title={Eig{T}ool},
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@article{ChowMGSmoothness,
abstract = {For non-M-matrices, this paper proposes an unstructured multigrid method that only attempts to interpolate in the directions of geometrical smoothness. These directions are determined by analyzing samples of algebraically smooth error, e. Neighboring grid points i and j are called smoothly coupled if e i and e j are consistently nearby in value. In addition, these dierences may be used to dene interpolation weights. These new ideas may be incorporated into the algebraic multigrid method. Test results show that the new method can have much lower grid and operator complexities compared to AMG, leading to lower solve timings. 1 },
author = {Chow, Edmond},
citeulike-article-id = {7675372},
citeulike-linkout-0 = {http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.22.4305},
journal = {American Journal of Mathematics},
keywords = {fem, multigrid},
pages = {197--215},
posted-at = {2010-08-17 23:29:51},
priority = {2},
title = {An Unstructured Multigrid Method Based on Geometric Smoothness},
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year = {2001}
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@article{JonesAMGe,
abstract = {{This paper contains the main ideas for an AMGe (algebraic multigrid for finite elements) method based on element agglomeration. In the method, coarse grid elements are formed by agglomerating fine grid elements. Compatible interpolation operators are constructed which yield coarse grid basis functions with a minimal energy property. Heuristics based on interpolation quality measures are used to guide the agglomeration procedure. The performance of the resulting method is demonstrated in two-level numerical experiments.}},
author = {Jones, Jim E. and Vassilevski, Panayot S.},
citeulike-article-id = {8598569},
citeulike-linkout-0 = {http://scitation.aip.org/getabs/servlet/GetabsServlet?prog=normal&id=SJOCE3000023000001000109000001&idtype=cvips&gifs=yes},
citeulike-linkout-1 = {http://link.aip.org/link/?SCE/23/109},
journal = {SIAM Journal on Scientific Computing},
keywords = {amg, fem, multigrid},
number = {1},
pages = {109--133},
posted-at = {2011-01-13 18:05:55},
priority = {2},
publisher = {SIAM},
title = {{AMGE Based on Element Agglomeration}},
url = {http://scitation.aip.org/getabs/servlet/GetabsServlet?prog=normal&id=SJOCE3000023000001000109000001&idtype=cvips&gifs=yes},
volume = {23},
year = {2001}
}
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author = {Saad, Youcef},
doi = {10.1137/0914028},
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journal = {SIAM Journal on Scientific Computing},
keywords = {65f10,ams,especially since the popularization,gate gradient,general purpose iterative methods,gmres,krylov subspace methods,mos,non-hermitian systems,of precondition-,preconditioned conju-,subject classi cations,variable preconditioners},
number = {2},
pages = {461--469},
title = {{A flexible inner-outer preconditioned GMRES algorithm}},
url = {http://dx.doi.org/10.1137/0914028},
volume = {14},
year = {1993}
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author = "S. Dirkse and M. Ferris and T. Munson",
title = "{{PATH} {W}eb page}",
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title = {Multiphysics Simulations: Challenges and Opportunities},
author = {David E. Keyes and Lois Curfman McInnes and Carol Woodward and
William Gropp and Eric Myra and Michael Pernice and
John Bell and Jed Brown and Alain Clo and Jeffrey Connors and
Emil Constantinescu and Don Estep and Kate Evans and Charbel Farhat and
Ammar Hakim and Glenn Hammond and Glen Hansen and Judith Hill and
Tobin Isaac and Xiangmin Jiao and Kirk Jordan and Dinesh Kaushik and
Efthimios Kaxiras and Alice Koniges and Kihwan Lee and Aaron Lott and
Qiming Lu and John Magerlein and Reed Maxwell and Michael McCourt and
Miriam Mehl and Roger Pawlowski and Amanda Peters Randles and Daniel Reynolds and
Beatrice Rivi\`{e}re and Ulrich R\"{u}de and Tim Scheibe and John Shadid and
Brendan Sheehan and Mark Shephard and Andrew Siegel and
Barry Smith and Xianzhu Tang and Cian Wilson and Barbara Wohlmuth},
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number = {1},
pages = {4--83},
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note = {Special issue},
abstract = {We consider multiphysics applications from algorithmic and
architectural perspectives, where ``algorithmic'' includes both
mathematical analysis and computational complexity and
``architectural'' includes both software and hardware environments.
Many diverse multiphysics applications can be reduced, en route to
their computational simulation, to a common algebraic coupling
paradigm. Mathematical analysis of multiphysics coupling in this form
is not always practical for realistic applications, but model problems
representative of applications discussed herein can provide insight.
A variety of software frameworks for multiphysics applications have
been constructed and refined within disciplinary communities and
executed on leading-edge computer systems. We examine several of
these, expose some commonalities among them, and attempt to
extrapolate best practices to future systems. From our study, we
summarize challenges and forecast opportunities.}
}
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author= "Robert {Rosner (Chair)}",
title = "{The Opportunities and Challenges of Exascale Computing}",
year = 2010,
howpublished = "Office of Science, U.S. Department of Energy",
url = {http://science.energy.gov/~/media/ascr/ascac/pdf/reports/Exascale_subcommittee_report.pdf}
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howpublished={DARPA},
year=2008,
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title = "{Scientific Grand Challenges Workshop Series}",
howpublished = "Office of Science, U.S. Department of Energy, see
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key = {Lawrence},
title = "{Ernest Orlando Lawrence Award Winners}",
howpublished = "U.S. Department of Energy, {\footnotesize \url{http://energy.gov/articles/secretary-chu-announces-2011-ernest-orlando-lawrence-award-winners}}",
year = 2011
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keywords = "Navier-Stokes",
keywords = "Boussinesq",
keywords = "Finite element approximation",
keywords = "Time stepping",
keywords = "Adaptivity",
keywords = "Preconditioning",
keywords = "Algebraic multigrid"
}
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PAGES={3--60}
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title={On an energy minimizing basis for algebraic multigrid methods},
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author = {C. G. Baker and
Ulrich Hetmaniuk and
Richard B. Lehoucq and
Heidi Thornquist},
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year = {2009},
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Weiguo Gao and
Zhaojun Bai and
Xiaoye S. Li and
Lie-Quan Lee and
Parry Husbands and
Esmond G. Ng},
title = {An Algebraic Substructuring Method for Large-Scale Eigenvalue
Calculation},
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volume = {27},
number = {3},
year = {2005},
pages = {873-892},
ee = {http://dx.doi.org/10.1137/040613767},
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author = {M.W. Gee and C.M. Siefert and J.J. Hu and R.S. Tuminaro and M.G. Sala},
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institution = {Sandia National Laboratories},
year = {2006},
number = {SAND2006-2649},
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title={An energy-based AMG coarsening strategy},
volume={13},
url={http://doi.wiley.com/10.1002/nla.480},
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author={Brannick, J and Brezina, M and MacLachlan, S and Manteuffel, T and McCormick, S and Ruge, J},
year={2006},
pages={133--148}
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author = {Olson, Luke N. and Schroder, Jacob and Tuminaro, Raymond S.},
title = {A new perspective on strength measures in algebraic multigrid},
journal = {Numerical Linear Algebra with Applications},
volume = {17},
number = {4},
pages = {713--733},
year = {2010},
publisher = {John Wiley \& Sons, Ltd.},
issn = {1099-1506},
url = {http://dx.doi.org/10.1002/nla.669},
doi = {10.1002/nla.669},
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author = {Olson, Luke N. and Schroder, Jacob B. and Tuminaro, Raymond S.},
title = {A General Interpolation Strategy for Algebraic Multigrid Using Energy Minimization},
journal = {SIAM J. Sci. Comput.},
issue_date = {April 2011},
volume = {33},
issue = {2},
month = apr,
year = {2011},
issn = {1064-8275},
pages = {966--991},
numpages = {26},
url = {http://dx.doi.org/10.1137/100803031},
doi = {http://dx.doi.org/10.1137/100803031},
acmid = {2078825},
publisher = {Society for Industrial and Applied Mathematics},
address = {Philadelphia, PA},
keywords = {algebraic multigrid, interpolation, non-Hermitian, nonsymmetric, smoothed aggregation},
}
@article{Dorit2011,
author = {Dorit Ron and
Ilya Safro and
Achi Brandt},
title = {Relaxation-Based Coarsening and Multiscale Graph Organization},
journal = {Multiscale Modeling {\&} Simulation},
volume = {9},
number = {1},
year = {2011},
pages = {407-423},
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Author = {Adams, M.~F. and Bayraktar, H.~H. and Keaveny, T.~M. and Papadopoulos, P.},
Booktitle = {ACM/IEEE Proceedings of SC2004: High Performance Networking and Computing},
Title = {Ultrascalable implicit finite element analyses in solid mechanics with over a half a billion degrees of freedom},
Note = {Gordon Bell Award},
Year = {2004}
}
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Author = {Adams, M.~F.},
Journal = {Numerical Linear Algebra with Applications},
Number = {2-3},
Pages = {141-153},
Title = {Algebraic multigrid methods for constrained linear systems with applications to contact problems in solid mechanics},
Volume = {11},
Year = {2004}
}
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Issn = {0021-9991},
Journal = {Journal of Computational Physics},
Keywords = {Implicit magnetohydrodynamics},
Number = {18},
Pages = {6208 - 6219},
Title = {Toward textbook multigrid efficiency for fully implicit resistive magnetohydrodynamics},
Url = {http://www.sciencedirect.com/science/article/B6WHY-4YY8N52-2/2/4a06d49560a7f24a4da5bb25d0c75d62},
Volume = {229},
Year = {2010},
Bdsk-Url-1 = {http://www.sciencedirect.com/science/article/B6WHY-4YY8N52-2/2/4a06d49560a7f24a4da5bb25d0c75d62},
Bdsk-Url-2 = {http://dx.doi.org/10.1016/j.jcp.2010.04.024}
}
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Year = 1998
}
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title = {Spectral element methods for the {Navier-Stokes} equations},
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year = {1989}
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title = "Multi-level {M}onte {C}arlo finite volume methods for nonlinear systems of conservation laws in multi-dimensions",
journal = "Journal of Computational Physics",
volume = 231,
number = 8,
pages = "3365--3388",
year = 2012,
issn = "0021-9991",
doi = "10.1016/j.jcp.2012.01.011",
author = "S. Mishra and Ch. Schwab and J. {\v S}ukys",
keywords = "Conservation laws",
keywords = "Euler",
keywords = "MHD",
keywords = "Uncertainty quantification",
keywords = "Multi-level Monte Carlo",
keywords = "Parallelization"
}
@article{barth2011mlmcfe,
author = {Barth, Andrea and Schwab, Christoph and Zollinger, Nathaniel},
affiliation = {ETH Zentrum, Seminar für Angewandte Mathematik, Rämistrasse 101, 8092 Zurich, Switzerland},
title = {Multi-Level {M}onte {C}arlo Finite Element method for elliptic {PDE}s with stochastic coefficients},
journal = {Numerische Mathematik},
publisher = {Springer Berlin / Heidelberg},
issn = {0029-599X},
keyword = {Mathematics and Statistics},
pages = {123-161},
volume = {119},
issue = {1},
url = {http://dx.doi.org/10.1007/s00211-011-0377-0},
note = {10.1007/s00211-011-0377-0},
year = {2011}
}
@article{nguyen2011hybridizable,
title={Hybridizable discontinuous {G}alerkin methods},
author={Nguyen, N.C. and Peraire, J. and Cockburn, B.},
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pages={63--84},
year={2011},
publisher={Springer}
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@Misc{snyder-scidac3:proposal,
author = {Philip {Snyder (PI)}},
title = {{Plasma Edge Advanced Computation (PEAC) Center}},
note = {proposal to DOE SciDAC3},
month = {Oct},
year = 2011
}
@Misc{wirth-scidac3:proposal,
author = {Brian {Wirth (PI)}},
title = {{Plasma Surface Interactions: Bridging from the Surface to the Micron Frontier through Leadership Class Computing}},
note = {proposal to DOE SciDAC3},
month = {Oct},
year = 2011
}
@Misc{cary-scidac3:proposal,
author = {John {Cary (PI)}},
title = {{Integrated Multiscale Modeling for Plasma Analysis and Control of Tokamak Stability (IMMPACTS)}},
note = {proposal to DOE SciDAC3},
month = {Oct},
year = 2011
}
@Misc{vashista-scidac3:proposal,
author = {Priya {Vashista (PI)}},
title = {{Design of Damage-Tolerance Material Interfaces for Extreme Stress-Temperature-Corrosion Environments: Algorithms and Methods for Multi-Petaflops Simulations}},
note = {proposal to DOE SciDAC3},
month = {March},
year = 2012
}
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%%%%%% Matt Stuff %%%%%%
@misc{knepley:icerm-workshop:2012,
author = {David Keyes and Matthew Knepley and Katherine Yelick},
title = {Synchronization-reducing and Communication-reducing Algorithms and Programming Models for Large-scale Simulations},
note = {Workshop sponsored by the Institute for Computational and Experimental Research in Mathematics (ICERM), Jan. 9-13, 2012, Providence, RI, \url{http://icerm.brown.edu/tw12-1-exascale}},
year = {2012}
}
@techreport{KirbyKnepleyScott04,
author = {Robert C. Kirby and Matthew G. Knepley and L. Ridgway Scott},
title = {Optimal Evaluation of Finite Element Matrices},
type = {Technical Report},
number = {TR-2004-04},
institution = {University of Chicago},
url = {http://www.cs.uchicago.edu/research/publications/techreports/TR-2004-04},
note = {\url{http://www.cs.uchicago.edu/research/publications/techreports/TR-2004-04}},
pages = {14},
month = {May},
year = {2004}
}
@techreport{KirbyKnepleyScott10,
author = {Robert C. Kirby and Matthew G. Knepley and L. Ridgway Scott},
title = {Languages and Compilers for Variational Forms},
type = {Technical Report},
number = {TR-2010-09},
institution = {University of Chicago},
url = {http://www.cs.uchicago.edu/research/publications/techreports/TR-2010-09},
note = {\url{http://www.cs.uchicago.edu/research/publications/techreports/TR-2010-09}},
month = {October},
year = {2010}
}
@techreport{KirbyKnepleyScott10b,
author = {Robert C. Kirby and Matthew G. Knepley and L. Ridgway Scott},
title = {Evaluation of the Action of Finite Element Operators},
type = {Technical Report},
number = {TR-2010-08},
institution = {University of Chicago},
url = {http://www.cs.uchicago.edu/research/publications/techreports/TR-2010-08},
note = {\url{http://www.cs.uchicago.edu/research/publications/techreports/TR-2010-08}},
month = {October},
year = {2010}
}
@techreport{BruneKnepleyScott11,
author = {Peter R. Brune and Matthew G. Knepley and L. Ridgway Scott},
title = {Exponential grids in high-dimensional space},
type = {Technical Report},
number = {TR-2011-07},
institution = {University of Chicago},
url = {http://www.cs.uchicago.edu/research/publications/techreports/TR-2011-07},
note = {\url{http://www.cs.uchicago.edu/research/publications/techreports/TR-2011-07}},
month = {December},
year = {2011}
}
@techreport{Zheng11,
author = {Liang Zheng and Taras Gerya and Matthew G. Knepley and David A. Yuen and Huai Zhang and Yaolin Shi},
title = {Implementation of a multigrid solver on {GPU} for {Stokes} equations with strongly variable viscosity based on {Matlab} and {CUDA}},
type = {Research Report},
number = {UMSI 2011/33},
institution = {University of Minnesota Supercomputing Institute},
url = {http://static.msi.umn.edu/rreports/2011/33.pdf},
note = {\url{http://static.msi.umn.edu/rreports/2011/33.pdf}},
month = {March},
year = {2011}
}
@inproceedings{Zheng2010,
author = {Liang Zheng and Taras Gerya and David A. Yuen and Matthew G. Knepley and Huai Zhang and Yaolin Shi},
title = {{GPU} Implementation of {Stokes} Equation with Strongly Variable Coefficients},
booktitle = {Eos Transactions of the AGU},
organization = {American Geophysical Union},
note = {Fall Meeting Supplemental, Abstract IN41A-1350},
year = {2010}
}
@incollection{TerrelKirbyKnepleyScott12,
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pages = {163--169},
publisher = {Springer-Verlag},
year = {2012}
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year = {2010}
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title = {Conference Review: High Performance Computing and Hybrid Programming Concepts for Hyperbolic PDE Codes},
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journal = {SIAM News},
volume = {44},
number = {7},
month = {September},
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year = {2011}
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journal = {Journal of Chemical Physics},
volume = {135},
number = {12},
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journal = {SIAM Journal on Scientific Computing},
url = {http://arxiv.org/abs/1104.0261},
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url = {http://iopscience.iop.org/1749-4699/5/1/014006/},
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year = {2012}
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journal = {Molecular Based Mathematical Biology},
volume = {1},
pages = {124--150},
doi = {10.2478/mlbmb-2013-0007},
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month = {June},
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year = {2013}
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author = {Jaydeep P. Bardhan and Matthew G. Knepley and Peter Brune},
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journal = {Journal of Chemical Physics},
note = {Submitted},
year = {2012}
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