Parallel PDE-based simulations using the common component architecture

Lecture Notes in Computational Science and Engineering

Volumn 51, Issue , 2006, Pages 327-381

  McInnes, Lois Curfman ^a   Allan, Benjamin A ^b   Armstrong, Robert ^b   Benson, Steven J ^a   Bernholdt, David E ^c   Dahlgren, Tamara L ^d   Diachin, Lori Freitag ^d   Krishnan, Manojkumar ^e   Kohl, James A ^c   Walter Larson, J ^a   Lefantzi, Sophia ^f   Nieplocha, Jarek ^e   Norris, Boyana ^a   Parker, Steven G ^g   Ray, Jaideep ^f   Zhou, Shujia ^h  

^a ARGONNE NATIONAL LABORATORY   (United States)

^b SANDIA NATIONAL LABORATORIES   (United States)

^c OAK RIDGE NATIONAL LABORATORY   (United States)

^d LAWRENCE LIVERMORE NATIONAL LABORATORY   (United States)

^e PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^f SNL   (United States)

^g UNIVERSITY OF UTAH   (United States)

^h NORTHROP GRUMMAN CORPORATION   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

INTEROPERABILITY; SOFTWARE ENGINEERING; SPECIFICATIONS;

COMMON COMPONENT ARCHITECTURE; COMPONENT ARCHITECTURES; COMPONENT-BASED SOFTWARE ENGINEERING; DOMAIN SPECIFIC; EXECUTION FRAMEWORK; HIGH PERFORMANCE COMPUTING; HIGH PERFORMANCE SCIENTIFIC COMPUTING; LARGE SCALE SIMULATIONS;

PARALLEL ARCHITECTURES;

EID: 84873896006     PISSN: 14397358     EISSN: None     Source Type: Book Series    
DOI: 10.1007/3-540-31619-1_10     Document Type: Article

References (137)

1. R. Ahrem, P. Post, B. Steckel, and K. Wolf. MpCCI: A tool for coupling CFD with other disciplines. In Proceedings of the Fifth World Conference in Applied Fluid Dynamics, CFD-Efficiency and Economic Benefit in Manufacturing, 2001.
2. R. Ahrem, P. Post, and K. Wolf. A communication library to couple simulation codes on distributed systems for multi-physics computations. In E. D'Hollander, G. Joubert, F. Peters, and H. Sips, editors, Parallel Computing: Fundamentals and Applications, Proceedings of the International Conference ParCO 99, pages 47-55. Imperial College Press, 1999.
3. B. Allan, R. Armstrong, S. Lefantzi, J. Ray, E. Walsh, and P. Wolfe. Ccaffeine-a CCA component framework for parallel computing. http://www.cca-forum. org/ccafe/, 2005.
4. B. A. Allan, R. C. Armstrong, A. P. Wolfe, J. Ray, D. E. Bernholdt, and J. A. Kohl. The CCA core specification in a distributed memory SPMD framework. Concurrency and Computation: Practice and Experience, 14(5):1-23, 2002.
5. B. A. Allan, S. Lefantzi, and J. Ray. ODEPACK++: Refactoring the LSODE Fortran library for use in the CCA high performance component software architecture. In Proceedings of the 9th International Workshop on High-Level Parallel Programming Models and Supportive Environments (HIPS 2004), Santa Fe, NM, April 2004. IEEE Press. see http://www.cca-forum.org/~baallan/odepp.
6. G. Allen, W. Benger, T. Goodale, H. Hege, G. Lanfermann, A. Merzky, T. Radke, E. Seidel, and J. Shalf. The Cactus code: A problem solving environment for the Grid. In High Performance Distributed Computing (HPDC), pages 253-260. IEEE Computer Society, 2000.
7. P. Alpatov, G. Baker, C. Edwards, J. Gunnels, G. Morrow, J. Overfelt, R. van de Geijn, and Y.-J. J. Wu. PLAPACK: Parallel linear algebra package-design overview. In Proceedings of SC97, 1997.
8. R. Armstrong, D. Gannon, A. Geist, K. Keahey, S. Kohn, L. McInnes, S. Parker, and B. Smolinski. Toward a Common Component Architecture for high-performance scientific computing. In Proceedings of the Eighth IEEE International Symposium on High Performance Distributed Computing, 1999.
9. L. F. S. B. P. Sommeijer and J. G. Verwer. RKC: an explicit solver for parabolic PDEs. J. Comp. Appl. Math., 88:315-326, 1998.
10. S. Balay, K. Buschelman, W. Gropp, D. Kaushik, M. Knepley, L. McInnes, B. F. Smith, and H. Zhang. PETSc users manual. Technical Report ANL-95/11-Revision 2.2.1, Argonne National Laboratory, 2004. http://www.mcs.anl.gov/petsc.
11. S. Balay, W. D. Gropp, L. C. McInnes, and B. F. Smith. Efficient management of parallelism in object oriented numerical software libraries. In E. Arge, A. M. Bruaset, and H. P. Langtangen, editors, Modern Software Tools in Scientific Computing, pages 163-202. Birkhauser Press, 1997.
12. P. Beckman, P. Fasel, W. Humphrey, and S. Mniszewski. Efficient coupling of parallel applications using PAWS. In Proceedings of the 7th IEEE International Symposium on High Performance Distributed Computation, July 1998.
13. S. Benson, M. Krishnan, L. McInnes, J. Nieplocha, and J. Sarich. Using the GA and TAO toolkits for solving large-scale optimization problems on parallel computers. Technical Report ANL/MCS-P1084-0903, Argonne National Laboratory, September 2003.
14. S. Benson, L. C. McInnes, and J. Morè. A case study in the performance and scalability of optimization algorithms. ACM Transactions on Mathematical Software, 27:361-376, 2001.
15. S. Benson, L. C. McInnes, J. Morè, and J. Sarich. TAO users manual. Technical Report ANL/MCS-TM-242-Revision 1.7, Argonne National Laboratory, 2004. http:// www.mcs.anl.gov/tao/.
16. S. Benson and J. Morè. A limited-memory variable-metric algorithm for boundconstrained minimization. Technical Report ANL/MCS-P909-0901, Mathematics and Computer Science Division, Argonne National Laboratory, 2001.
17. M. Berger and P. Colella. Local adaptive mesh refinement for shock hydrodynamics. J. Comp. Phys., 82:64-84, 1989.
18. M. J. Berger and J. Oliger. Adaptive mesh refinement for hyperbolic partial differential equations. J. Comp. Phys., 53:484-523, 1984.
19. D. E. Bernholdt, B. A. Allan, R. Armstrong, F. Bertrand, K. Chiu, T. L. Dahlgren, K. Damevski, W. R. Elwasif, T. G. W. Epperly, M. Govindaraju, D. S. Katz, J. A. Kohl, M. Krishnan, G. Kumfert, J. W. Larson, S. Lefantzi, M. J. Lewis, A. D. Malony, L. C. McInnes, J. Nieplocha, B. Norris, S. G. Parker, J. Ray, S. Shende, T. L. Windus, and S. Zhou. A component architecture for high-performance scientific computing. Intl. J. High-Perf. Computing Appl., 2005. Submitted to ACTS Collection special issue, in press.
20. D. E. Bernholdt, R. C. Armstrong, and B. A. Allan. Managing complexity in modern high end scientific computing through component-based software engineering. In Proceedings. of the HPCA Workshop on Productivity and Performance in High-End Computing (P-PHEC 2004), Madrid, Spain. IEEE Computer Society, 2004.
21. D. E. Bernholdt, W. R. Elwasif, J. A. Kohl, and T. G.W. Epperly. A component architecture for high-performance computing. In Proceedings of the Workshop on Performance Optimization via High-Level Languages and Libraries (POHLL-02), 2002.
22. F. Bertrand, R. Bramley, K. Damevski, J. Kohl, J. Larson, and A. Sussman. MxN interactions in parallel component architectures. Technical Report TR604, Department of Computer Science, Indiana University, Bloomington, 2004.
23. T. Bettge, A. Craig, R. James, and V. Wayland. The DOE Parallel Climate Model (PCM): The computational highway and backroads. In V. N. Alexandrov, J. J. Dongarra, B. A. Juliano, R. S. Renner, and C. J. K. Tan, editors, Proceedings of the International Conference on Computational Science (ICCS) 2001, volume 2073 of Lecture Notes in Computer Science, pages 148-156, Berlin, 2001. Springer-Verlag.
24. G. E. Blelloch, M. A. Heroux, and M. Zagha. Segmented operations for sparse matrix computation on vector multiprocessor. Technical Report CMU-CS-93-173, Carnegie Mellon University, 1993.
25. Boost. http://www.boost.org, 2005.
26. D. Box. Essential COM. Addison-Wesley, December 1997.
27. R. Bramley, D. Gannon, T. Stuckey, J. Vilacis, E. Akman, J. Balasubramanian, F. Berg, S. Diwan, and M. Govindaraju. The linear system analyzer. In Enabling Technologies for Computational Science, Kluwer, 2000.
28. CCA Forum homepage. http://www.cca-forum.org/, 2005.
29. CCA Specification. http://cca-forum.org/specification/, 2005.
30. S. Chatterjee, G. E. Blelloch, and M. Zagha. Scan primitives for vector computers. In Supercomputing 1990, 1990.
31. R. Clay et al. ESI homepage. http://www.terascale.net/esi, 2001.
32. B. Cockburn and C.-W. Shu. The local discontinuous Galerkin method for timedependent convection-diffusion systems. SIAM J. Numer. Anal., 35(6):2440-2463, 1998.
33. S. D. Cohen and A. C. Hindmarsh. CVODE, a stiff/nonstiff ODE solver in C. Computers in Physics, 10(2):138-143, 1996.
34. P. Colella. An Algorithmic and Software Framework for Applied Partial Differential Equations Center (APDEC). http://davis.lbl.gov/APDEC/, 2005.
35. P. Colella et al. Chombo-Infrastructure for Adaptive Mesh Refinement. http:// seesar.lbl.gov/anag/chombo, 2005.
36. Colorado State University. The CSU GCM (BUGS) homepage. http://kiwi. atmos.colostate.edu/BUGS/, 2005.
37. Combustion Research Facility. http://www.ca.sandia.gov/CRF, 2005.
38. T. Dahlgren, T. Epperly, and G. Kumfert. Babel User's Guide. CASC, Lawrence Livermore National Laboratory, version 0.9.0 edition, January 2004.
39. J. de St. Germain, A. Morris, S. Parker, A. Malony, and S. Shende. Integrating performance analysis in the Uintah software development cycle. In The Fourth International Symposium on HighPerformance Computing (ISHPC-IV), pages 190-206, May 15-17 2002.
40. J. D. de St. Germain, J. McCorquodale, S. G. Parker, and C. R. Johnson. Uintah: A massively parallel prolem solving environment. In Proceedings of the Ninth IEEE International Symposium on High Performance and Distributed Computing, August 2000.
41. D. R. Durran. Numerical Methods for Wave Equations in Geophysical Fluid Dynamics. Springer, 1999.
42. G. Edjlali, A. Sussman, and J. Saltz. Interoperability of data-parallel runtime libraries. In International Parallel Processing Symposium, Geneva, Switzerland, April 1997. IEEE Computer Society Press.
43. G. Eisenhauer, F. Bustamante, and K. Schwan. Event services for high performance systems. Cluster Computing: The Journal of Networks, Software Tools, and Applications, 3(3), 2001.
44. R. Englander. Developing Java Beans. O'Reilly and Associates, June 1997.
45. J. T. Feo, D. C. Cann, and R. R. Oldehoeft. A report on the Sisal language project. Journal of Parallel and Distributed Computing, 10(4):349-366, 1990.
46. E. Gamma et al. Design Patterns: Elements of Reusable Object-Oriented Software. Addison-Wesley, 1994.
47. L. Ge, L. Lee, L. Zenghai, C. Ng, K. Ko, Y. Luo, and M. Shephard. Adaptive mesh refinement for high accuracy wall loss determination in accelerating cavity design. In IEEE Conf. on Electromagnetic Field Computations, June 2004.
48. G. A. Geist, A. Beguelin, J. Dongarra, W. Jiang, R. Manchek, and V. Sunderam. PVM: Parallel Virtual Machine, A User's Guide and Tutorial for Networked Parallel Computing. MIT Press, Cambridge, MA, 1994.
49. G. A. Geist, J. A. Kohl, and P. M. Papadopoulos. CUMULVS: Providing fault tolerance, visualization and steering of parallel applications. Intl. J. High-Perf. Computing Appl., 11(3):224-236, 1997.
50. GFDL Flexible Modeling System. http://www.gfdl.noaa.gov/fms, 2004.
51. M. S. Gockenbach, M. J. Petro, and W. W. Symes. C++ classes for linking optimization with complex simulations. ACM Transactions on Mathematical Software, 25(2):191-212, 1999.
52. M. Govindaraju, S. Krishnan, K. Chiu, A. Slominski, D. Gannon, and R. Bramley. Merging the CCA component model with the OGSI framework. In 3rd IEEE/ACM International Symposium on Cluster Computing and the Grid, 12-15 May 2003.
53. E. Guilyardi, R. G. Budich, and S. Valcke. PRISM and ENES: European approaches to Earth System Modelling. In Proceedings of Realizing TeraComputing-Tenth Workshop on the Use of High Performance Computing in Meteorology, November 2002.
54. L. Harper and B. Kauffman. Community Climate System Model. http://www. ccsm.ucar.edu/, 2005.
55. T. C. Henderson, P. A. McMurtry, P. J. Smith, G. A. Voth, C. A. Wight, and D. W. Pershing. Simulating accidental fires and explosions. Comp. Sci. Eng., 2:64-76, 1994.
56. M. A. Heroux and J. M. Willenbring. Trilinos Users Guide. Technical Report SAND2003-2952, Sandia National Laboratories, 2003. http://software. sandia.gov/Trilinos.
57. C. Hill et al. The architecture of the earth system modeling framework. Computing in Science and Engineering, 6(1):18-28, 2003.
58. A. C. Hindmarsh. ODEPACK, a systematized collection of ODE solvers. Scientific Computing, 1993.
59. P. Hovland, K. Keahey, L. C. McInnes, B. Norris, L. F. Diachin, and P. Raghavan. A quality of service approach for high-performance numerical components. In Proceedings of Workshop on QoS in Component-Based Software Engineering, Software Technologies Conference, Toulouse, France, 20 June 2003.
60. E. C. Hunke and J. K. Dukowicz. An elastic-viscous-plastic model for sea ice dynamics. J. Phys. Oc., 27:1849-1867, 1997.
61. Indiana University. XCAT homepage. http://www.extreme.indiana.edu/ xcat/, 2005.
62. G. E. Karniadakis and S. J. Sherwin. Spectral/Hp Element Methods for CFD. Numerical Mathematics and Scientific Computation. Oxford University Press, 1999.
63. K. Keahey, P. Beckman, and J. Ahrens. Ligature: Component architecture for high performance applications. Intl. J. High-Perf. Computing Appl., 14(4):347-356, Winter 2000.
64. K. Keahey, P. Fasel, and S. Mniszewski. PAWS: Collective interactions and data transfers. In Proceedings of the High Performance Distributed Computing Conference, San Francisco, CA, August 2001.
65. J. P. Kenny, S. J. Benson, Y. Alexeev, J. Sarich, C. L. Janssen, L. C. McInnes, M. Krishnan, J. Nieplocha, E. Jurrus, C. Fahlstrom, and T. L. Windus. Component-based integration of chemistry and optimization software. J. of Computational Chemistry, 25(14):1717-1725, 2004.
66. D. Keyes. Terascale Optimal PDE Simulations (TOPS) Center. http://tops-scidac.org/, 2005.
67. T. Killeen, J. Marshall, and A. da Silva. Earth System Modeling Framework. http: //www.esmf.ucar.edu, 2005.
68. O. Knio, H. Najm, and P. Wyckoff. A semi-implicit numerical scheme for reacting flow. II. stiff, operator-split formulation. J. Comp. Phys., 154:428-467, 1999.
69. J. A. Kohl and P. M. Papadopoulos. A library for visualization and steering of distributed simulations using PVM and AVS. In High Performance Computing Symposium, Montreal, CA, July 1995.
70. S. H. Lam and D. A. Goussis. The CSP method of simplifying kinetics. International Journal of Chemical Kinetics, 26:461-486, 1994.
71. J. Larson, R. Jacob, and E. Ong. The Model Coupling Toolkit: A new Fortran90 toolkit for building multi-physics parallel coupled models. Technical Report ANL/MCSP1208-1204, Argonne National Laboratory, 2004. Submitted to Int. J. High Perf. Comp. App. See also http://www.mcs.anl.gov/mct/.
72. J. W. Larson, R. L. Jacob, I. T. Foster, and J. Guo. The Model Coupling Toolkit. In V. N. Alexandrov, J. J. Dongarra, B. A. Juliano, R. S. Renner, and C. J. K. Tan, editors, Proceedings of the International Conference on Computational Science (ICCS) 2001, volume 2073 of Lecture Notes in Computer Science, pages 185-194, Berlin, 2001. Springer-Verlag.
73. J. W. Larson, B. Norris, E. T. Ong, D. E. Bernholdt, J. B. Drake, W. R. Elwasif, M. W. Ham, C. E. Rasmussen, G. Kumfert, D. S. Katz, S. Zhou, C. DeLuca, and N. S. Collins. Components, the Common Component Architecture, and the climate/weather/ocean community. In 84th American Meteorological Society Annual Meeting, Seattle, Washington, 11-15 January 2004. American Meteorological Society.
74. Lawrence Livermore National Laboratory. Babel. http://www.llnl.gov/CASC/ components/babel.html, 2005.
75. J. C. Lee, H. N. Najm, M. Valorani, and D. A. Goussis. Using computational singular perturbation to analyze large scale reactive flows. In Proceedings of the Fall Meeting of the Western States Section of the The Combustion Institute, Los Angeles, California, October 2003. Distributed via CD-ROM.
76. S. Lefantzi, C. Kennedy, J. Ray, and H. Najm. A study of the effect of higher order spatial discretizations in SAMR (Structured Adaptive Mesh Refinement) simulations. In Proceedings of the Fall Meeting of the Western States Section of the The Combustion Institute, Los Angeles, California, October 2003. Distributed via CD-ROM.
77. S. Lefantzi and J. Ray. A component-based scientific toolkit for reacting flows. In Proceedings of the Second MIT Conference on Computational Fluid and Solid Mechanics, June 17-20, 2003, Cambridge, MA, volume 2, pages 1401-1405. Elsevier, 2003.
78. S. Lefantzi, J. Ray, C. Kennedy, and H. Najm. A component-based toolkit for reacting flow with high order spatial discretizations on structured adaptively refined meshes. Progress in Computational Fluid Dynamics: An International Journal, 2004. To appear.
79. S. Lefantzi, J. Ray, and H. N. Najm. Using the Common Component Architecture to design high performance scientific simulation codes. In Proceedings of the 17th International Parallel and Distributed Processing Symposium (IPDPS 2003), 22-26 April 2003, Nice, France. IEEE Computer Society, 2003.
80. S. Lefantzi, J. Ray, and S. Shende. Strong scalability analysis and performance evaluation of a CCA-based hydrodynamic simulation on structured adaptively refined meshes. Poster in ACM/IEEE Conference on Supercomputing, November 2003, Phoenix, AZ.
81. S. Lele. Compact finite differnece schemes with spectral-like resolution. J. Comp. Phys., 103:16-42, 1992.
82. Z. Lilek and M. Perić. A fourth-order finite volume method with collocated variable arrangement. Computers & Fluids, 24, 1995.
83. S. J. Lin et al. Global weather prediction and high-end computing at NASA. Computing in Science and Engineering, 6(1):29-35, 2003.
84. J. Lindemann, O. Dahlblom, and G. Sandberg. Using CORBA middleware in finite element software. In P. M. A. Sloot, C. J. K. Tan, J. J. Dongarra, and A. G. Hoekstra, editors, Proceedings of the 2nd International Conference on Computational Science, Lecture Notes in Computer Science. Springer, 2002. To appear in Future Generation Computer Systems (2004).
85. A. Lumsdaine et al. Matrix Template Library. http://www.osl.iu.edu/ research/mtl, 2005.
86. Massachussetts Institute of Technology. The MIT GCM homepage. http:// mitgcm.org/, 2005.
87. J. McCorquodale, J. de St. Germain, S. Parker, and C. Johnson. The Uintah parallelism infrastructure: A performance evaluation on the SGI Origin 2000. In High Performance Computing 2001, Mar 2001.
88. J. J. Morè and S. J. Wright. Optimization Software Guide. SIAM Publications, Philadelphia, 1993.
89. MPI Forum. MPI: a message-passing interface standard. International Journal of Supercomputer Applications and High Performance Computing, 8(3/4):159-416, Fall-Winter 1994.
90. H. N. Najm et al. CFRFS homepage. http://cfrfs.ca.sandia.gov/, 2005.
91. H. N. Najm, R.W. Schefer, R. B. Milne, C. J. Mueller, K. D. Devine, and S. N. Kempka. Numerical and experimental investigation of vortical flow-flame interaction. SAND Report SAND98-8232, UC-1409, Sandia National Laboratories, Livermore, CA 94551-0969, February 1998.
92. J. Nieplocha, R. J. Harrison, and R. J. Littlefield. Global arrays: A non-uniformmemory-access programming model for high-performance computers. J. Supercomputing, 10(2):169, 1996.
93. B. Norris, S. Balay, S. Benson, L. Freitag, P. Hovland, L. McInnes, and B. Smith. Parallel components for PDEs and optimization: Some issues and experiences. Parallel Computing, 28(12):1811-1831, 2002.
94. B. Norris, J. Ray, R. Armstrong, L. C. McInnes, D. E. Bernholdt, W. R. Elwasif, A. D. Malony, and S. Shende. Computational quality of service for scientific components. In Proc. of International Symposium on Component-Based Software Engineering (CBSE7), Edinburgh, Scotland, 2004.
95. Object Management Group. CORBA component model. http://www.omg.org/ technology/documents/formal/components.htm, 2002.
96. B. Palmer and J. Nieplocha. Efficient algorithms for ghost cell updates on two classes of MPP architectures. In 14th IASTED International Conference on Parallel and Distributed Computing and Systems, Cambridge, MA, 2002.
97. M. Parashar et al. GrACE homepage. http://www.caip.rutgers.edu/ TASSL/Projects/GrACE/, 2005.
98. S. G. Parker. A component-based architecture for parallel multi-physics PDE simulation. In Proceedings of the International Conference on Computational Science-Part III, pages 719-734. Springer-Verlag, 2002.
99. C. Pèrez, T. Priol, and A. Ribes. A parallel CORBA component model for numerical code coupling. Intl. J. High-Perf. Computing Appl., 17(4), Nov 2003.
100. R. Peyret and T. Taylor. Computational Methods for Fluid Flow, chapter 6. Springer Series in Computational Physics. Springer-Verlag, New York, 1983. Finite-Difference Solution of the Navier-Stokes Equations.
101. Phillip Jones. Parallel Ocean Program (POP) homepage. http://climate.lanl. gov/Models/POP/, 2004.
102. T. Poinsot, S. Candel, and A. Trouvè. Applications of direct numerical simulation to premixed turbulent combustion. Progress in Energy and Combustion Science, 21:531-576, 1995.
103. R. Pozo. Template Numerical Toolkit. http://math.nist.gov/tnt, 2004.
104. K. Radhakrishnan and A. C. Hindmarsh. Description and use of LSODE, the Livermore solver for ordinary differential equations. Technical Report UCRL-ID-113855, Lawrence Livermore National Laboratory, 1993.
105. M. Ranganathan, A. Acharya, G. Edjlali, A. Sussman, and J. Saltz. A runtime coupling of data-parallel programs. In Proceedings of the 1996 International Conference on Supercomputing, Philadelphia, PA, May 1996.
106. J. Ray, B. A. Allan, R. Armstrong, and J. Kohl. Structured mesh demo for supercomputing 2004. http://www.cca-forum.org/~jaray/SC04/sc04.html, 2004.
107. J. Ray, C. Kennedy, S. Lefantzi, and H. Najm. High-order spatial discretizations and extended stability methods for reacting flows on structured adaptively refined meshes. In Proceedings of the Third Joint Meeting of the U.S. Sections of The Combustion Institute, March 16-19, 2003, Chicago, Illinois., 2003. Distributed via CD-ROM.
108. J. V. W. Reynders, J. C. Cummings, P. J. Hinker, M. Tholburn, M. S. S. Banerjee, S. Karmesin, S. Atlas, K. Keahey, and W. F. Humphrey. POOMA: A FrameWork for Scientific Computing Applications on Parallel Architectures, chapter 14. MIT Press, 1996.
109. E. Roman. Mastering Enterprise JavaBeans. O'Reilly and Associates, June 1997.
110. J. Sarich. A programmer's guide for providing CCA component interfaces to the Toolkit for Advanced Optimization. Technical Report ANL/MCS-TM-279, Argonne National Laboratory, 2004.
111. B. Smith et al. TOPS Solver Interface. http://www-unix.mcs.anl.gov/ scidac-tops/tops-solver-interface, 2005.
112. K. Smith, J. Ray, and B. A. Allan. CVODE component user guidelines. Technical Report SAND2003-8276, Sandia National Laboratory, May 2003.
113. B. Sportisse. An analysis of operator splitting techniques in the stiff case. J. Comp. Phys., 161:140-168, 2000.
114. G. Strang. On the construction and comparison of difference schemes. SIAM J. Numer. Anal., 5(3):506-517, 1968.
115. M. J. Suarez and L. Takacs. Documentation of the Aries-GEOS dynamical core: Version 2. Technical Report TM-1995-104606, NASA, 1995.
116. D. Sulsky, Z. Chen, and H. L. Schreyer. A Particle Method for History Dependent Materials. Comp. Methods Appl. Mech. Engrg, 118, 1994.
117. Y. Sun, N. Folwell, Z. Li, and G. Golub. High precision accelerator cavity design using the parallel eigensolver Omega3P. In Proc. of the 18th Annual Review of Progress in Applied Computational Electromagnetics ACES 2002, Monterey, CA, 2002.
118. C. Szyperski. Component Software: Beyond Object-Oriented Programming. ACM Press, New York, 1999.
119. B. Talbot, S. Zhou, and G. Higgins. Software engineering support of the third round of scientific grand challenge investigations-earth system modeling software framework survey task4 report. Technical Report TM-2001-209992, NASA, 2001.
120. L. Trease, H.E. and Trease. NWGrid: A multi-dimensional, hybrid, unstructured, parallel mesh generation system. http://www.emsl.pnl.gov/nwgrid, 2005.
121. The Terascale Simulation Tools and Technologies (TSTT) Center. http://www. tstt-scidac.org, 2005.
122. U. S. Dept. of Energy. SciDAC Initiative homepage. http://www.osti.gov/ scidac/, 2005.
123. University Corporation for Atmospheric Research. The Community Atmosphere Model (CAM) homepage. http://www.ccsm.ucar.edu/models/atm-cam/, 2005.
124. University of Oregon. TAU: Tuning and analysis utilities. http://www.cs. uoregon.edu/research/tau, 2005.
125. S. Vajracharya, S. Karmesin, P. Beckman, J. Crotinger, A. Malony, S. Shende, R. Oldehoeft, and S. Smith. Smarts: Exploiting temporal locality and parallelism through vertical execution. In Proceedings of the 13th International Conference on Supercomputing (ICS 99), pages 302-310, Rhodes, Greece, 1999. ACM Press.
126. T. Veldhuizen et al. BLITZ++: Object-oriented scientific computing. http://www. oonumerics.org/blitz, 2005.
127. M. R. Visbal and D. V. Gaitonde. On the use of higher-order finite-difference schemes on curvilinear and deforming meshes. J. Comp. Phys., 181:155-185, 2002.
128. Z. Wang and G. P. Huang. An essentially nonoscillatory high-order Padè-type (ENOPad è) scheme. J. Comp. Phys., 177:37-58, 2002.
129. Weather Research and Forecasting Model. http://www.wrf-model.org/, 2005.
130. F. Williams. Combustion Theory. Addison-Wesley, New York, 2nd edition, 1985.
131. A. Wissink, R. Hornung, S. Kohn, S. Smith, and N. Elliott. Large scale parallel structured AMR calculations using the SAMRAI framework. In Proceedings of the SC01 Conf. High Perf. Network. and Comput, Denver, CO, November 2001.
132. th ACM International Conference on Supercomputing (ICS03), pages 336-347, San Francisco, CA, June 2003.
133. M. Wolf, Z. Cai, W. Huang, and K. Schwan. Smart pointers: Personalized scientific data portals in your hand. In Proceedings of Supercomputing 2002, November 2002.
134. M. Wolf, A. Guetz, and C.-K. Ng. Modeling large accelerator structures with the parallel field solver Tau3P. In Proc. of the 18th Annual Review of Progress in Applied Computational Electromagnetics ACES 2002, Monterey, CA, 2002.
135. K. Zhang, K. Damevski, V. Venkatachalapathy, and S. Parker. SCIRun2: A CCA framework for high performance computing. In Proceedings of the 9th International Workshop on High-Level Parallel Programming Models and Supportive Environments (HIPS 2004), Santa Fe, NM, April 2004. IEEE Press.
136. S. Zhou. Coupling earth system models: An ESMF-CCA prototype. http:// webserv.gsfc.nasa.gov/ESS/esmf tasc, 2003.
137. S. Zhou, A. da Silva, B. Womack, and G. Higgins. Prototyping the ESMF using DOE's CCA. In NASA Earth Science Technology Conference 2003, College Park, MD, 24-26 June 2003. http://esto.nasa.gov/conferences/estc2003/ papers/A4P3(Zhou).pdf.