QMView and GAMESS: Integration into the World Wide Computational Grid

High performance computing, storage, visualization, and database infrastructures are increasing geometrically in complexity as scientists move towards grid-based computing. While this is natural, it has the effect of pushing computational capabilities beyond the reach of scientists because of the time needed to harness the infrastructure. Hiding the complexity of networked resources becomes essential if scientists are to utilize them effectively. In this work, we describe our efforts to integrate various computational chemistry components into a scientific computing environment. We briefly describe improvements we have made to individual components of the chemistry environment as well as future directions, followed by a more in-depth discussion of our strategy for integration into a grid workflow environment based on web services, which enables access to remote resources while shielding users from the complexities of the grid infrastructures. A preliminary schema for storing data obtained from computational chemistry calculations is also described.

[1]  Richard Wolski,et al.  The network weather service: a distributed resource performance forecasting service for metacomputing , 1999, Future Gener. Comput. Syst..

[2]  Ian T. Foster,et al.  Globus: a Metacomputing Infrastructure Toolkit , 1997, Int. J. High Perform. Comput. Appl..

[3]  Mark S. Gordon,et al.  The Distributed Data Interface in GAMESS , 2000 .

[4]  K K Baldridge,et al.  QMView: a computational chemistry three-dimensional visualization tool at the interface between molecules and mankind. , 1995, Journal of molecular graphics.

[5]  T. N. Bhat,et al.  The Protein Data Bank , 2000, Nucleic Acids Res..

[6]  Geoffrey C. Fox,et al.  Computational grids , 2001, Comput. Sci. Eng..

[7]  Michael J. Holst,et al.  The adaptive multilevel finite element solution of the Poisson-Boltzmann equation on massively parallel computers , 2001, IBM J. Res. Dev..

[8]  Kurt Mueller,et al.  The GridPort toolkit: a system for building Grid portals , 2001, Proceedings 10th IEEE International Symposium on High Performance Distributed Computing.

[9]  Scott Seely,et al.  SOAP: Cross Platform Web Services Development Using XML , 2001 .

[10]  Satish R. Thatte,et al.  SOAP: Simple Object Access Protocol , 1999 .

[11]  Mark S. Gordon,et al.  General atomic and molecular electronic structure system , 1993, J. Comput. Chem..

[12]  Steven Tuecke,et al.  The Physiology of the Grid An Open Grid Services Architecture for Distributed Systems Integration , 2002 .

[13]  Peter Murray-Rust,et al.  Development of chemical markup language (CML) as a system for handling complex chemical content , 2001 .

[14]  Kim K. Baldridge,et al.  QMVIEW: As a Supramolecular Visualization Tool , 1995 .

[15]  Mark Overmars Forms Library-A Graphical User Interface Toolkit for Silicon Graphics Workstations , 1992 .