%
% 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
@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 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.},
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, USA},
}
@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},
Journal = {Simulation and Visualisation},
Pages = {247--258},
Publisher = {Citeseer},
Title = {Interactive simulation of deformable bodies on {GPU}s},
Volume = {2005},
Year = {2005}}
@article{harish2007accelerating,
Author = {Harish, P. and Narayanan, P.},
Date-Added = {2010-08-19 15:41:27 -0500},
Date-Modified = {2010-08-19 15:41:27 -0500},
Journal = {High Performance Computing--HiPC 2007},
Pages = {197--208},
Publisher = {Springer},
Title = {Accelerating large graph algorithms on the {GPU} using CUDA},
Year = {2007}}
@article{keunings1995parallel,
Author = {Keunings, R.},
Date-Added = {2010-08-19 15:41:19 -0500},
Date-Modified = {2010-08-19 15:41:19 -0500},
Journal = {Computers and Chemical Engineering},
Number = {6},
Pages = {647--670},
Publisher = {Oxford; New York: Pergamon Press, 1977-},
Title = {Parallel finite element algorithms applied to computational rheology},
Volume = {19},
Year = {1995}}
@conference{taylor2007real,
Author = {Taylor, Z.A. and Cheng, M. and Ourselin, S.},
Booktitle = {Proceedings of the 10th international conference on Medical image computing and computer-assisted intervention-Volume Part I},
Date-Added = {2010-08-19 15:41:17 -0500},
Date-Modified = {2010-08-19 15:41:17 -0500},
Organization = {Springer-Verlag},
Pages = {701--708},
Title = {Real-time nonlinear finite element analysis for surgical simulation using graphics processing units},
Year = {2007}}
@article{liu2000finite,
Author = {Liu, R. and Li, DY},
Date-Added = {2010-08-19 15:41:16 -0500},
Date-Modified = {2010-08-19 15:41:16 -0500},
Journal = {Materials Science and Engineering A},
Number = {1-2},
Pages = {169--175},
Publisher = {Elsevier},
Title = {A finite element model study on wear resistance of pseudoelastic {TiNi} alloy},
Volume = {277},
Year = {2000}}
@conference{kakadiaris1994active,
Author = {Kakadiaris, I.A. and Metaxas, D. and Bajcsy, R.},
Booktitle = {IEEE Computer Society Conference on Computer Vision and Pattern Recognition},
Date-Added = {2010-08-19 15:41:15 -0500},
Date-Modified = {2010-08-19 15:41:15 -0500},
Organization = {Citeseer},
Pages = {980--980},
Title = {Active part-decomposition, shape, and motion estimation of articulated objects: A physics-based approach},
Year = {1994}}
@conference{de2004gpu,
Author = {De Pascale, M. and De Pascale, G. and Prattichizzo, D. and Barbagli, F.},
Booktitle = {Proceedings of Eurohaptics},
Date-Added = {2010-08-19 15:41:14 -0500},
Date-Modified = {2010-08-19 15:41:14 -0500},
Organization = {Citeseer},
Pages = {44--51},
Title = {A {GPU}-friendly method for haptic and graphic rendering of deformable objects},
Volume = {2004},
Year = {2004}}
@book{taflove1995computational,
Author = {Taflove, A. and Hagness, S.C.},
Date-Added = {2010-08-19 15:41:14 -0500},
Date-Modified = {2010-08-19 15:41:14 -0500},
Publisher = {Artech House Norwood, MA},
Title = {Computational electrodynamics},
Year = {1995}}
@conference{galoppo2005lu,
Author = {Galoppo, N. and Govindaraju, N.K. and Henson, M. and Manocha, D.},
Booktitle = {Proceedings of the 2005 ACM/IEEE conference on Supercomputing},
Date-Added = {2010-08-19 15:41:13 -0500},
Date-Modified = {2010-08-19 15:41:13 -0500},
Organization = {IEEE Computer Society},
Pages = {3},
Title = {{LU-GPU}: Efficient algorithms for solving dense linear systems on graphics hardware},
Year = {2005}}
@conference{ryoo2008optimization,
Author = {Ryoo, S. and Rodrigues, C.I. and Baghsorkhi, S.S. and Stone, S.S. and Kirk, D.B. and Hwu, W.W.},
Booktitle = {Proceedings of the 13th ACM SIGPLAN Symposium on Principles and practice of parallel programming},
Date-Added = {2010-08-19 15:41:12 -0500},
Date-Modified = {2010-08-19 15:41:12 -0500},
Organization = {ACM},
Pages = {73--82},
Title = {Optimization principles and application performance evaluation of a multithreaded {GPU} using CUDA},
Year = {2008}}
@conference{micikevicius20093d,
Author = {Micikevicius, P.},
Booktitle = {Proceedings of 2nd Workshop on General Purpose Processing on Graphics Processing Units},
Date-Added = {2010-08-19 15:41:11 -0500},
Date-Modified = {2010-08-19 15:41:11 -0500},
Organization = {ACM},
Pages = {79--84},
Title = {3D finite difference computation on {GPU}s using {CUDA}},
Year = {2009}}
@conference{zhou2004pixel,
Author = {Zhou, Y. and Garland, M. and Haber, R.},
Booktitle = {IEEE Visualization, 2004},
Date-Added = {2010-08-19 15:41:03 -0500},
Date-Modified = {2010-08-19 15:41:03 -0500},
Pages = {425--432},
Title = {Pixel-exact rendering of spacetime finite element solutions},
Year = {2004}}
@article{komatitsch2009porting,
Author = {Komatitsch, D. and Mich{\'e}a, D. and Erlebacher, G.},
Date-Added = {2010-08-19 15:41:01 -0500},
Date-Modified = {2010-08-19 15:41:01 -0500},
Journal = {Journal of Parallel and Distributed Computing},
Number = {5},
Pages = {451--460},
Publisher = {Elsevier},
Title = {Porting a high-order finite-element earthquake modeling application to NVIDIA graphics cards using CUDA},
Volume = {69},
Year = {2009}}
@article{komatitsch1998spectral,
Author = {Komatitsch, D. and Vilotte, J.P.},
Date-Added = {2010-08-19 15:40:59 -0500},
Date-Modified = {2010-08-19 15:40:59 -0500},
Journal = {Bulletin of the Seismological Society of America},
Number = {2},
Pages = {368--392},
Publisher = {[El Cerrito, Calif., etc., Seismological Society of America, etc.]},
Title = {The spectral element method: {A}n efficient tool to simulate the seismic response of 2D and 3D geological structures},
Volume = {88},
Year = {1998}}
@article{wu2005improved,
Author = {Wu, W. and Heng, P.A.},
Date-Added = {2010-08-19 15:40:59 -0500},
Date-Modified = {2010-08-19 15:40:59 -0500},
Journal = {The Visual Computer},
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@article{taylor2008high,
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@article{wu2004hybrid,
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% ----------------------------------------------------------------------------------------------------------------
@TechReport{davis97,
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@unpublished{copper,
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author = {},
note = {Held bi-annually},
year = 2009
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@techreport{daly2012interagency,
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Adaptive Mesh Refinement Techniques",
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YEAR="1995"
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}
@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"
}
@Book{using-mpi,
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
}
@article{hs:52,
author="Magnus R. Hestenes and Eduard Steifel",
title="Methods of Conjugate Gradients for Solving Linear Systems",
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volume=7,
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author="Peter Sonneveld",
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volume=10,
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author="{H. A.} {van der Vorst}",
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pages = "367-379"}
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booktitle = "Proceedings of the AIAA Tenth Computational Fluid Dynamics Conference",
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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",
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YEAR= "1992"
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@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
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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}
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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",
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editor= "Mike Henderson et al.",
pages= "165-173",
year= "1998"
}
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PUBLISHER = "SIAM",
ADDRESS = "Philadelphia, PA",
YEAR = 1997
}
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PUBLISHER = "Domain Decomposition Press, Bergen",
NOTE = "To appear",
YEAR = "1999" }
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volume=23,
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% -------------------------------------------------------------------------
% -------------------------------------------------------------------------
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% ---------------------------------------------------------------------------------
% New bib entries for CRPC paper
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mgnet-web-page,
author = "Craig C. Douglas",
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dagh-web-page,
author = "M. Parashar and J. C. Browne",
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parasol-web-page,
key = "PARASOL",
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pooma-web-page,
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mudpack-web-page,
author = "John C. Adams",
title = "{MUDPACK Web page}",
note = "See {\tt http://\-www.scd.ucar.edu/\-css/\-software/\-mudpack}"
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@misc {
pellpack-web-page,
author = "Elias Houstis and John Rice and Apostolos Hadjidimos",
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nhse-web-page,
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doug-web-page,
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AUTHOR="Mark J. Hagger",
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NUMBER="9706",
NOTE= "Advances in Computational Mathematics (to appear)"
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ug-web-page,
author = "{UG Web Page}",
note = "See {\tt http://\-cox.iwr.uni-heidelberg.de/\~{ }ug/}"
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year = "1997",
volume = "",
pages = ""
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vecfem-web-page,
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@Unpublished{ kelp-web-page,
author = "Scott Baden",
title = "{KeLP} {W}eb page",
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hk99,
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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",
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solution of linear equations. The different versions
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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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key = {Fftw},
title = {{FFTW} {Web} page},
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title = "{SPAI} {W}eb {P}age",
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author = "Steven Bernard and Marcus Grote",
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@article( zhang98,
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@inproceedings{ConselMarlet98,
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ADDRESS = "Pisa, Italy",
}
@misc{sundials:homepage,
author = "C. {Woodward et al.}",
title = "{SUNDIALS {W}eb page}",
howpublished = "\url{https://computation.llnl.gov/casc/sundials/main.html}"
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% -----------------------------------------------------------------------
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abstract = {{Design Patterns is a modern classic in the literature of object-oriented development, offering timeless and elegant solutions to common problems in software design. It describes patterns for managing object creation, composing objects into larger structures, and coordinating control flow between objects. The book provides numerous examples where using composition rather than inheritance can improve the reusability and flexibility of code. Note, though, that it's not a tutorial but a catalog that you can use to find an object-oriented design pattern that's appropriate for the needs of your particular application--a selection for virtuoso programmers who appreciate (or require) consistent, well-engineered object-oriented designs.} {Now on CD, this internationally acclaimed bestseller is more valuable than ever!
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.
The authors first describe what patterns are and how they can help you in the design process. They then systematically name, explain, evaluate, and catalog recurring designs in object-oriented systems. All patterns are compiled from real-world examples and include code that demonstrates how they may be implemented in object-oriented programming languages such as C++ and Smalltalk. Readers who already own the book will want the CD to take advantage of its dynamic search mechanism and ready-to-install patterns.}},
author = {Gamma, Erich and Helm, Richard and Johnson, Ralph and Vlissides, John},
citeulike-article-id = {115158},
howpublished = {Hardcover},
isbn = {0201633612},
keywords = {1995 algorithms architecture book books computer computing design design-pattern design-patterns design_patterns designpatterns development diplom entwurfsmuster four gang gof java mathgamespatterns no-tag object object-orientation object-oriented of oo-patterns oop oriented pattern patterns programming se software software-development software-engineering software_design softwareengineering standard},
month = {January},
publisher = {{Addison-Wesley Professional}},
title = {Design Patterns},
url = {http://www.amazon.ca/exec/obidos/redirect?tag=citeulike04-20{\&}path=ASIN/0201633612},
year = {1995}
}
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abstract = {{
Fibre bundles, now an integral part of differential geometry, are also of great importance in modern physics--such as in gauge theory. This book, a succinct introduction to the subject by renown mathematician Norman Steenrod, was the first to present the subject systematically.
It begins with a general introduction to bundles, including such topics as differentiable manifolds and covering spaces. The author then provides brief surveys of advanced topics, such as homotopy theory and cohomology theory, before using them to study further properties of fibre bundles. The result is a classic and timeless work of great utility that will appeal to serious mathematicians and theoretical physicists alike.
}},
author = {Steenrod, Norman},
citeulike-article-id = {712999},
howpublished = {Paperback},
isbn = {0691005486},
keywords = {fibre_bundles topology},
month = {April},
publisher = {{Princeton University Press}},
title = {The Topology of Fibre Bundles. (PMS-14)},
url = {http://www.amazon.ca/exec/obidos/redirect?tag=citeulike04-20{\&}path=ASIN/0691005486},
year = {1999}
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AUTHOR = {Bredon, Glen E.},
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PUBLISHER = {Springer},
PAGES = {524},
SERIES = {Graduate Texts in Mathematics},
YEAR = 1997
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month = "April",
year = "2004"
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@misc{wright2002eigtool,
title={Eig{T}ool},
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@misc{visit-web-site,
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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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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},
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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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pages={257--280},
year={2009}
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pages={1790--1808},
year={2008},
publisher={Academic Press}
}
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}
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year = 2002,
publisher = "IEEE"
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author = {Emile Picard},
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@InBook{McInnesAllanEtAl06,
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David Bernholdt and Tamara Dahlgren and Lori Diachin and Manojkumar Krishnan and
James Kohl and Jay Larson and Sophia Lefantzi and Jarek Nieplocha and Boyana Norris and
Steven Parker and Jaideep Ray and Shujia Zhou},
editor = {A.~M.~Bruaset and A.~Tveito},
title = {Numerical Solution of Partial Differential Equations on Parallel Computers},
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Architecture}},
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journal = "Journal of Computational Physics",
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@article{KeyesMcInnesWoodwardEtAl13,
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},
journal = {International Journal of High Performance Computing Applications},
month = {Feb},
year = {2013},
volume = {27},
number = {1},
pages = {4--83},
doi = {10.1177/1094342012468181},
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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title={ExaScale Computing Study: {T}echnology Challenges in achieving exascale systems},
author={Peter Kogge and Keren Bergman and Shekhar Borkar and Dan Campbell and Willian Carlson and William Dally and Monty Denneau and Paul Franzon and William Harrod and Kerry Hill and Jon Hiller and Sherman Karp and Stephen Keckler and Dean Klein and Robert Lucas and Mark Richards and Al Scarpelly and Steven Scott and Allan Snavely and Themas Sterling and R. Stanley Williams and Katherine Yelick},
howpublished={DARPA},
year=2008,
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title = "{Scientific Grand Challenges Workshop Series}",
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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}}",
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note = "",
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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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AUTHOR={J. Dongarra and P. Beckman and et al.},
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YEAR={2011},
PAGES={3--60}
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year={2007},
publisher={Springer}
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title={On an energy minimizing basis for algebraic multigrid methods},
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Ulrich Hetmaniuk and
Richard B. Lehoucq and
Heidi Thornquist},
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number = {3},
year = {2009},
ee = {http://doi.acm.org/10.1145/1527286.1527287},
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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},
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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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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},
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doi = {10.1002/nla.669},
pdf = {./files/2010_OlScTu_evosoc.pdf}
}
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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},
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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, USA},
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},
ee = {http://dx.doi.org/10.1137/100791142}
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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.},
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Year = {2004}
}
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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},
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}
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Year = 1998
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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},
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keyword = {Mathematics and Statistics},
pages = {123-161},
volume = {119},
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year = {2011}
}
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title={Hybridizable discontinuous {G}alerkin methods},
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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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author = {Jack Poulson and Bryan Marker and Jeff R. Hammond and Nichols A. Romero and Robert {v}an~{d}e~{G}eijn},
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volume = {39},
number = {2},
year = {2013}
}
@misc{elemental-web-page,
author = {Jack Poulson},
title = {Elemental: Distributed memory dense linear algebra},
howpublished = {\url{http://code.google.com/p/elemental/}},
url = {http://code.google.com/p/elemental/},
year = {2012}
}
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publisher = {U.S. Department of Energy},
year = {2004},
url = {http://www.pnl.gov/scales}
}
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year = {1995}
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year = {2012}
}
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@techreport{LAPACK90,
author = {E. Anderson and Z. Bai and C. Bischof and J. Demmel and J. Dongarra and J. Du~Croz and A. Greenbaum and S. Hammarling and A. McKenney and D. Sorensen},
title = {{LAPACK}: A portable linear algebra library for high-performance computers},
institution = {Computer Science Dept., University of Tennessee},
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year = {1990}
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@misc{IntelMIC,
author = {Many Core Group, Cambridge University},
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title = {Programming with tiles},
booktitle = {Proceedings of the 13th ACM SIGPLAN Symposium on Principles and practice of parallel programming},
series = {PPoPP '08},
year = {2008},
isbn = {978-1-59593-795-7},
location = {Salt Lake City, UT, USA},
pages = {111--122},
numpages = {12},
url = {http://doi.acm.org/10.1145/1345206.1345225},
doi = {10.1145/1345206.1345225},
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publisher = {ACM},
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Journal = {International Journal of High Performance Computing Applications},
Year = {2004},
Title = {Sparse Tiling for Stationary Iterative Methods},
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@misc{OpenCLStandard,
author = {Khronos Group},
title = {{OpenCL} 1.2 Specification},
howpublished = {\url{http://www.khronos.org/registry/cl/specs/opencl-1.2.pdf}},
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author = {SGI},
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@misc{dealii-web-page,
author = {W. Bangerth and R. Hartmann and G. Kanschat},
title = {{deal.II}},
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author = {Jeremy G. Siek},
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@misc{sharpclaw,
note = {\url{http://numerics.kaust.edu.sa/sharpclaw}},
author = {Ketcheson, D. I. and Parsani, M.},
keywords = {clawpack,finite volumes,godunov type methods,high order methods,hyperbolic PDEs,sharpclaw,software},
mendeley-tags = {clawpack,finite volumes,godunov type methods,high order methods,hyperbolic PDEs,sharpclaw,software},
title = {{SharpClaw software}},
year = {2011}
}
@misc{clawpack45,
note = {\url{http://www.clawpack.org}},
author = {LeVeque, R. J. and Berger, M. J.},
keywords = {clawpack,finite volumes,hyperbolic PDEs,software},
mendeley-tags = {clawpack,finite volumes,hyperbolic PDEs,software},
title = {{Clawpack Software version 4.5}},
url = {www.clawpack.org},
year = {2011}
}
@article{Nilsen2010,
archivePrefix = {arXiv},
arxivId = {arXiv:1002.0705v1},
author = {Nilsen, J.K. and Cai, X. and H{\o}yland, Bj{\o} rn and Langtangen, H. P.},
eprint = {arXiv:1002.0705v1},
file = {:Users/ketch/Documents/Mendeley Desktop/Nilsen et al/2010 - Simplifying the parallelization of scientific codes by a function-centric approach in Python.pdf:pdf},
journal = {Computational Science \& Discovery},
keywords = {parallel,programming,python,software},
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@misc{PyCUDA,
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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,
author = {Andy R. Terrel and Robert C. Kirby and Matthew G. Knepley and L. Ridgway Scott and Garth N. Wells},
title = {Finite elements for incompressible fluids},
editors = {A. Logg and K.A. Mardal and G. N. Wells},
booktitle = {Automated solutions of differential equations by the finite element method},
series = {Lecture Notes in Computational Science and Engineering},
volume = {84},
pages = {163--169},
publisher = {Springer-Verlag},
year = {2012}
}
@incollection{KirbyKnepleyLoggScottTerrel12,
author = {Robert C. Kirby and Matthew G. Knepley and Anders Logg and L. Ridgway Scott and Andy R. Terrel},
title = {Discrete optimization of finite element matrix evaluation},
editors = {A. Logg and K.A. Mardal and G. N. Wells},
booktitle = {Automated solutions of differential equations by the finite element method},
series = {Lecture Notes in Computational Science and Engineering},
volume = {84},
pages = {385--397},
publisher = {Springer-Verlag},
year = {2012}
}
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@article{KirbyKnepleyLoggScott05,
author = {Robert C. Kirby and Matthew G. Knepley and Anders Logg and L. Ridgway Scott},
title = {Optimizing the evaluation of finite element matrices},
journal = {SIAM Journal on Scientific Computing},
volume = {27},
number = {3},
pages = {741--758},
year = {2005}
}
@article{BardhanKnepleyAnitescu2008,
author = {Jaydeep P. Bardhan and Matthew G. Knepley and Mihai Anitescu},
title = {Bounding the Electrostatic Free Energies Associated with Linear Continuum Models of Molecular Solvation},
journal = {Journal of Chemical Physics},
volume = {130},
number = {10},
note = {Selected for the March 15, 2009 issue of Virtual Journal of Biological Physics Research},
year = {2008}
}
@article{Knepley2010,
author = {Stodden, V. and Knepley, M. G. and Wiggins, C. and LeVeque, R. J. and Donoho, D. and Fomel, S. and Friedlander, M. P. and Gerstein, M. and Mitchell, I. and Ouellette, L. L. and Bramble, N. W. and Brown, P. O. and Carey, V. and DeNardis, L. and Gentleman, R. and {Gezelter, J}, D. and Goodman, A. and Moore, J. E. and Pasquale, F. A. and Rolnick, J. and Seringhaus, M. and Subramanian, R.},
title = {{Reproducible Research: addressing the need for data and code sharing in computational science}},
journal = {Computing in Science and Engineering},
volume = {12},
number = {5},
pages = {8--13},
url = {http://www.bepress.com/cgi/viewcontent.cgi?article=1034\&context=sagmb},
note = {\url{http://www.bepress.com/cgi/viewcontent.cgi?article=1034}},
year = {2010}
}
@article{KetchesonAhmadiaKnepley2011,
title = {Conference Review: High Performance Computing and Hybrid Programming Concepts for Hyperbolic PDE Codes},
author = {David I. Ketcheson and Aron Ahmadia and Matthew G. Knepley},
journal = {SIAM News},
volume = {44},
number = {7},
month = {September},
note = {\url{http://www.siam.org/pdf/news/1912.pdf}},
year = {2011}
}
@article{YokotaBardhanKnepleyBarbaHamada2011,
author = {Rio Yokota and Jaydeep P. Bardhan and Matthew G. Knepley and L.A. Barba and Tsuyoshi Hamada},
title = {Biomolecular electrostatics using a fast multipole {BEM} on up to 512 {GPU}s and a billion unknowns},
journal = {Computer Physics Communications},
volume = {182},
number = {6},
pages = {1272--1283},
year = {2011},
issn = {0010-4655},
doi = {10.1016/j.cpc.2011.02.013},
note = {\url{http://arxiv.org/abs/1007.4591}},
url = {http://www.sciencedirect.com/science/article/pii/S0010465511000750}
}
@article{BardhanKnepley2011,
author = {Jaydeep P. Bardhan and Matthew G. Knepley},
title = {Mathematical Analysis of the {BIBEE} Approximation for Molecular Solvation: Exact Results for Spherical Inclusions},
journal = {Journal of Chemical Physics},
volume = {135},
number = {12},
pages = {124107--124117},
url = {http://arxiv.org/abs/1109.0651},
note = {\url{http://arxiv.org/abs/1109.0651}},
year = {2011}
}
@article{BruneKnepleyScott2013,
author = {Peter R. Brune and Matthew G. Knepley and L. Ridgway Scott},
title = {Unstructured Geometric Multigrid in Two and Three Dimensions on Complex and Graded Meshes},
journal = {SIAM Journal on Scientific Computing},
url = {http://arxiv.org/abs/1104.0261},
note = {\url{http://arxiv.org/abs/1104.0261}},
volume = {35},
number = {1},
pages = {A173--A191},
year = {2013}
}
@article{BardhanKnepley2012a,
author = {Jaydeep P. Bardhan and Matthew G. Knepley},
title = {Computational science and re-discovery: open-source implementations of ellipsoidal harmonics for problems in potential theory},
journal = {Computational Science \& Discovery},
volume = {5},
pages = {014006},
url = {http://iopscience.iop.org/1749-4699/5/1/014006/},
note = {\url{http://arxiv.org/abs/1204.0267}},
doi = {doi:10.1088/1749-4699/5/1/014006},
year = {2012}
}
@article{KreienkampEtAl2013,
author = {Amy Kreienkamp and Lucy Y. Liu and Mona S. Minkara and Matthew G. Knepley and Jaydeep P. Bardhan and Mala L. Radhakrishnan},
title = {Analysis of fast boundary-integral approximations for modeling electrostatic contributions of molecular binding},
journal = {Molecular Based Mathematical Biology},
volume = {1},
pages = {124--150},
doi = {10.2478/mlbmb-2013-0007},
issn = {2299-3266},
month = {June},
note = {\url{http://www.degruyter.com/view/j/mlbmb.2012.1.issue/mlbmb-2013-0007/mlbmb-2013-0007.xml}},
year = {2013}
}
@article{BardhanKnepleyBrune2012,
author = {Jaydeep P. Bardhan and Matthew G. Knepley and Peter Brune},
title = {Analytical Nonlocal Electrostatics Using Eigenfunction Expansions of Boundary-Integral Operators},
journal = {Journal of Chemical Physics},
note = {Submitted},
year = {2012}
}
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year = {2011}
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