Computer Science

• Gabrielle Allen and Edward Seidel, Application Frameworks for High Performance and Grid Computing, Scientific Computing, 2006 [Cover Story] [Link].
• Gabrielle Allen, Philip Bogden, Gerald Creager, Chirag Dekate, Carola Jesch, Hartmut Kaiser, Jon MacLaren, Will Perrie, Gregory Stone, Xiongping Zhang, GIS and integrated coastal ocean forecasting, submitted to Concurrency and Computation: Practice and Experience (2006).
• Zhou Lei, Dayong Huang, Archit Kulshrestha, Santiago Pena, Gabrielle Allen, Xin Li, Richard Duff, Subhash Kalla, Chris D. White, John R. Smith, ResGrid: A Grid-aware Toolkit For Reservoir Uncertainty Analysis, accepted for CCGrid 2006.
• Zhou Lei, Dayong Huang, Archit Kulshrestha, Santiago Pena, Gabrielle Allen, Xin Li, Richard Duff, Subhash Kalla, Chris D. White, John R. Smith, Leveraging Grid Technologies For Reservoir Uncertainty Analysis, accepted for HPC 2006.
• Dayong Huang, Gabrielle Allen, Chirag Dekate, Hartmut Kaiser, Zhou Lei and Jon MacLaren, getdata: A Grid Enabled Data Client for Coastal Modeling, submitted to HPC 2006.
• Andrei Hutanu, Gabrielle Allen, Stephen D. Beck, Petr Holub, Hartmut Kaiser, Archit Kulshrestha, Milos Liska, Jon MacLaren, Ludek Matyska, Ravi Paruchuri, Steffen Prohaska, Ed Seidel, Brygg Ullmer, Shalini Venkataraman, Distributed and collaborative visualization of large data sets using high-speed networks, accepted for Future Generation Computer Systems.
• Jon MacLaren, Gabrielle Allen, Chirag Dekate, Dayong Huang, Andrei Hutanu and Chongjie Zhang, Shelter from the Storm: Building a Safe Archive in a Hostile World, Lecture Notes in Computer Science Volume 3752, On the Move to Meaningful Internet Systems 2005, Ed: R. Meersman, Z. Tari, P. Herrero, p. 294, 2005. [Link]
• Chongjie Zhang, Chirag Dekate, Gabrielle Allen, Ian Kelley and Jon MacLaren, An Application Portal for Collaborative Coastal Modeling, Proceedings of GCE 2005 (Workshop on Grid Computing Portals), Supercomputing 2005, to be published in Concurrency and Computation: Practice and Experience. (Best paper award).
• Chongjie Zhang, Ian Kelley and Gabrielle Allen, Grid Portal Solutions: A Comparison of GridPortlets and OGCE, Proceedings of GCE 2005 (Workshop on Grid Computing Portals), Supercomputing 2005, to be published in Concurrency and Computation: Practice and Experience.
• R. Dooley, K. Milfield, C. Guiang, S. Parmidighantum, G. Allen, From Proposal to Production: Lessons Learned Developing the Computational Chemistry Grid Cyberinfrastructure, Journal of Grid Computing. [To be published in International Journal of Grid Computing]
  (CCT Bibtex: CS_Dooley05a)
• G. Allen, K. Davis, T. Goodale, A. Hutanu, H. Kaiser, T. Kielmann, A. Merzky, R. Van Nieuwpoort, A. Reinefeld, F. Schintke, T. Schuett, E. Seidel and B. Ullmer, The Grid Application Toolkit: Toward Generic and Easy Application Programming Interfaces for the Grid, Proceedings of the IEEE, 93(3), pp 534-550, (2005). [Link]
  (CCT Bibtex: CS_Allen05a)
• J. Denemark, A. Kulshrestha and G. Allen, Deploying Legacy Applications on Grids, Proceedings of the 13th Annual Mardi Gras Conference, Frontiers of Grid Applications and Technologies, 3-5 February 2005, Baton Rouge, pp 29-34, (2005). [Link]
  (CCT Bibtex: CS_Denemark05a)
Z. Lei, S. Lui, R. Dooley and G. Allen, Enabling GRAM Applications Using GAT: A GAT Resource Broker Adaptor, Proceedings of the 13th Annual Mardi Gras Conference, Frontiers of Grid Applications and Technologies, 3-5 February 2005, Baton Rouge, pp 66-71, (2005). [Link]
(CCT Bibtex: CS_Lei05a)
• R. Bondarescu, G. Allen, G. Daues, I. Kelley, M. Russell, E. Seidel, J. Shalf and M. Tobias, The Astrophysics Simulation Collaboratory Portal: a Framework for Effective Distributed Research, Future Generation Computer Systems, Volume 21, Issue 2, Pages 259-270, (2005). [Link]
  (CCT Bibtex: CS_Bondarescu03a)
• G. Allen, T. Goodale, H. Kaiser, T. Kielmann, A. Kulshrestha, A. Merzky and R. V. van Nieuwpoort, A Day in the Life of a Grid-Enabled Application: Counting on the Grid. Proceedings of the Workshop on Grid Application Programming Interfaces, GGF12, Brussels, September 20th 2004, (2004). [Link]
• G. Allen and E. Seidel, Collaborative Science: Astrophysics Requirements and Experiences, in The Grid: Blueprint for a New Computing Infrastructure (2nd Edition), Ed: Ian Foster and Carl Kesselmann, p. 201-213, (2004). [Link]
  (CCT Bibtex: CS_Allen03a)
• M. Russell, G. Allen, J. Nabrzyski, T. Goodale, and E. Seidel, Applications Requirements for Resource Brokering in a Grid Environment, In Grid Resource Management: State of the Art and Future Trends (International Series in Operations Research and Management Science), Ed: J. Nabrzyski, J. Schopf and J. Waglarz, Kluwer Academic Publishers, Pages 25-40, (2004). [Link]
  (CCT Bibtex: CS_Russell03a)
• G. Allen, T. Goodale, M. Russell, E. Seidel and J. Shalf, Classifying and Enabling Grid Applications, In Grid Computing: Making the Global Infrastructure a Reality, Ed: F. Berman, G. Fox, A. J. G. Hey, John Wiley, Pages 601-614, (2003). [Link]
  (CCT Bibtex: CS_Allen02b)
• T. Goodale, G. Allen, G. Lanfermann, J. Masso, T. Radke, E. Seidel and J. Shalf, The Cactus Framework and Toolkit: Design and Applications, Vector and Parallel Processing --- VECPAR'2002, 5th International Conference, Springer, (2003). [Link]
  (CCT Bibtex: CS_Goodale02a)
• G. Allen, G, K. Davis, K. N. Dolkas, N. D. Doulamis, T. Goodale, T. Kielmann, A. Merzky, J. Nabrzyski, J. Pukacki, and T. Radke, Enabling applications on the grid: A Gridlab overview, International Journal of High Performance Computing Applications, Volume 17, Number 4, Pages 449-466, (2003). [Link]
  (CCT Bibtex: CS_Allen03c)
• G. Allen, D. Angulo, T. Goodale, T. Kielmann, A. Merzky, J. Nabrzysky, J. Pukacki, M. Russell, T. Radke, E. Seidel, J. Shalf and I. Taylor, GridLab: Enabling Applications on the Grid, In Lecture Notes in Computer Science, Grid Computing - GRID 2002 : Third International Workshop, Baltimore, MD, USA, November 18, 2002. Proceedings, Springer Verlag, Pages 39-45, (2003). [Link].
  (CCT Bibtex: CS_Allen_03d)
• E. Seidel, G. Allen, A. Merzky and J. Nabrzyski, GridLab - A Grid Application Toolkit and Testbed, Future Generation Computer Systems, Volume 18, Issue 8, Pages, 1143-1153, (2002). [Link]
  (CCT Bibtex: CS_Seidel02a)
• G. Allen, E. Seidel, J. Shalf, Scientific Computing on the Grid, Byte, Spring, (2002). [Link].
  (CCT Bibtex: CS_Allen02a)
• M. Russell, G. Allen, I. Foster, E. Seidel, J. Novotny, J. Shalf, G. Laszewski and G. Daues, The Astrophysics Simulation Collaboratory: A Science Portal Enabling Community Software Development, Journal on Cluster Computing, Volume 5, Issue 3, Pages 297-304, (2002). [Link].
• G. von Laszewski, M. Russell, I. Foster, J. Shalf, G. Allen, G. Daues, J. Novotny and E. Seidel, Community Software Development with the Astrophysics Simulation Collaboratory, Concurrency and Computation: Practice and Experience, Volume 14, Issue 13-15, Pages 1289-1301, (2002). [Link]
• G. Allen, T. Dramlitsch, I. Foster, N. Karonis, M. Ripeanu, E. Seidel and B. Toonen, Supporting efficient execution in heterogeneous distributed computing environments with Cactus and Globus, Proceedings of Supercomputing 2001, Denver, USA, (2001). [Link]
• G. Allen, D. Angulo, I. Foster, G. Lanfermann, C. Liu, T. Radke, E. Seidel and J. Shalf, The Cactus Worm: Experiments with Dynamic Resource Discovery and Allocation in a Grid Environment, International Journal of High Performance Computing Applications, 15(4), (2001). [Link]
• M. Russell, G. Allen, G. Daues, I. Foster, T. Goodale, E. Seidel, J. Novotny, J. Shalf, W.M. Suen and G. Von Laszewski, The Astrophysics Simulation Collaboratory: A Science Portal Enabling Community Software Development, In: High Performance Distributed Computing, 2001, Proceedings of Tenth IEEE International Symposium on High Performance Distributed Computing, HPDC-10, San Francisco, Pages 207-215, (2001). [Link]
• G. Allen, W. Benger, T. Dramlitsch, T. Goodale, H. Hege, G. Lanfermann, A. Merzky, T. Radke and E. Seidel, Cactus Grid Computing: Review of Current Development, Lecture Notes In Computer Science; Vol. 2150, Euro-Par 2001: Parallel Processing, Proceedings of 7th International Euro-Par Conference Manchester, UK August 28-31, 2001, R. Sakellariou, J. Keane, J. Gurd, L. Freeman (Eds.), Springer-Verlag, (2001). [Link]
• G. Allen, W. Benger, T. Goodale, H. Hege, G. Lanfermann, A. Merzky, T. Radke, E. Seidel and J. Shalf, Cactus Tools for Grid Applications, Cluster Computing, Volume 4, Issue 3, Pages 179-188, (2001). [Link].
• G. Allen, T. Dramlitsch, T. Goodale, G. Lanfermann, T. Radke, E. Seidel, T. Kielmann, K. Verstoep, Z. Balaton, P. Kacsuk, F. Szalai, J. Gehring, A. Keller, A. Streit, L. Matyska, M. Ruda, A. Krenek, B. Ludwiczak, J. Nabrzyski, J. Pukacki, H. Frese, H. Knipp, A, Merzky, A. Reinefeld, F. Schinkte, H. Kersken, G. Aloisio, M. Cafaro, W. Ziegler and M. Russell, Early Experiences with the Egrid Testbed, IEEE International Symposium on Cluster Computing and the Grid, Brisbane, Australia, May 16-18, page 130 (2001). [Link].
• 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, Proceedings of the 9th IEEE International Symposium on High Performance Distributed Computing (HPDC9), August 1-4 2000, Pittsburgh, pp 253, IEEE Computer Society, (2000). [Link]
• G. Allen, T. Goodale, G. Lanfermann, T. Radke, E. Seidel, The Cactus Code for the Grid, Proceedings of 1st EGrid Meeting, Poznan, (2000).
• G. Allen, T. Dramlitsch, I. Foster, T. Goodale, N. Karonis, M. Ripeanu, E. Seidel, and B. Toonen, Cactus-G: Enabling High-Performance Simulation in Heterogeneous Distributed Computing Environments, Proceedings of Fourth Globus Retreat, July 30-August 1 2000, Pittsburgh, (2000).
• G. Allen, T. Goodale, G. Lanfermann, T. Radke, E. Seidel, W. Benger, H. Hege, A. Merzky, J. Masso and J. Shalf, Solving Einstein's Equations on Supercomputers, IEEE Computer, 32, (1999). [Link] [Cover story]
• G. Allen, T. Goodale, J. Masso and E. Seidel, The Cactus Computational Toolkit and Using Distributed Computing to Collide Neutron Stars, Proceedings of the 8th IEEE International Symposium on High Performance Distributed Computing (HPDC8), Redondo Beach August 3-6 1999, IEEE Computer Society, (1999). [Link]
• G. Allen, T. Goodale and E. Seidel, The Cactus Computational Collaboratory: Enabling Technologies for Relativistic Astrophysics, and a Toolkit for Solving PDEs by Communities in Science and Engineering, Proceedings of 7th Symposium on the Frontiers of Massively Parallel Computation (Frontiers99), IEEE, New York (1999). [Link]

Documentation and Technical Reports

• Gabrielle Allen, Tom Goodale, Gerd Lanfermann, Thomas Radke, David Rideout, Jonathan Thornburg, Cactus Users Guide, (2005). [Link]

Gravitational Physics

• M. Alcubierre, G. Allen, C. Bona, D. Fiske, T. Goodale, F.S. Guzman, I. Hawke, S. Hawley, S. Husa, M. Koppitz, C. Lechner, D. Pollney, D. Rideout, M. Salgado, E. Schnetter, E. Seidel, H. Shinkai, D. Shoemaker, B. Szilagyi, R. Takahashi, J. Winicour, Towards standard testbeds for numerical relativity, Class. Quantum Grav., 21(2), p. 589-613, (2004). [Link]
• M. Alcubierre, G. Allen, B. Bruegmann, G. Lanfermann, E. Seidel, W.M. Suen, M. Tobias, Gravitational Collapse of Gravitational Waves in 3D Numerical Relativity, Physical Review D, 61, 041501, (2000). [Link]
• Miguel Alcubierre, G. Allen, B. Bruegmann, E. Seidel and W.-M. Suen, Towards an understanding of the stability properties of the 3+1 evolution equations in general relativity, Physical Review D, 62, 124011, (2000). [Link]
• Gabrielle Allen, N. Andersson, K.D. Kokkotas, P. Laguna, J. Pullin and J. Ruoff, The close-limit approximation to neutron star collisions. Physical Review D, 60, 104021, (1999).
• G.D. Allen, N. Andersson, K.D. Kokkotas and B.F. Schutz, Evolutions of Stellar Oscillations, in Proceedings of the 8th Marcel Grossmann Meeting on General Relativity, Ed: T. Piran, World Scientific, Singapore, p.732-734, (1999).
• Gabrielle Allen, N. Andersson, K.D. Kokkotas, B.F. Schutz, Gravitational Waves from Pulsating Stars: Evolving the Perturbation Equations for a Relativistic Star, Phys. Rev. D, 58, 124012 (1998).
• Gabrielle Allen, K. Camarda, and E. Seidel, Evolution of Distorted Black Holes: A Perturbative Approach, Physical Review D, (gr-qc/9806014), (submitted).
• G. Allen, K. Camarda, and E. Seidel, Black Hole Spectroscopy: Determining Waveforms from 3D Excited Black Holes, Physical Review D, (gr-qc/9806036), (submitted).
• L.A. Wild, M. Alcubierre, G. Allen and B. Schutz, Interface Behaviour in an Adaptive Mesh in Proceedings of the 7th Marcel Grossmann Meeting on General Relativity, Stanford 24-30 July 1994, Ed: R. Jantzen, World Scientific, Singapore, p.651-653, (1996).
• G. Allen, M. Alcubierre, S. Farrar, B.F. Schutz and L.A. Wild, Modeling Moving Black Holes, Proceedings of the 7th Marcel Grossmann Meeting on General Relativity, Stanford 24-30 July 1994, Ed: R. Jantzen, World Scientific, Singapore, p.615-618, (1996).
• G.D. Allen, Numerical Relativists Illuminate Black Hole Collisions, Physics World, 7(1), (1994).
• G.D. Allen and B.F. Schutz, An ADI Scheme for a Black Hole Problem, In Approaches to Numerical Relativity, Ed: R. d'Inverno, Cambridge University Press, Cambridge, (1992). G. Allen, Finite Differencing Near 3-D Black Holes, The Proceedings of the Computational Relativity Black Hole Conference, October 7-9 1992, Syracuse, (1992).
• G.D. Allen, Implicit Schemes for Wave Propagation, The Proceedings of the Texas Symposium on 3D Numerical Relativity, Ed: R. Matzner, (1990).