Computational resources of clusters and their using in chemical calculations
Kuzminskiy M.B.1 , Mendkovich A.S.1
1. N.D. Zelinsky Institute of Organic Chemistry RAS (IOC RAS)
Section: Experimental/Clinical Study
Year: 2004
An overview of main technical characteristics of Beowulf clusters (both their nodes and interconnect) is presented. Performance data, in particular about parallelization of quantum chemical and molecular dynamics calculations in this clusters, are presented. The tests of servers based on 64-bit x86-compatible new generation microprocessors - AMD Opteron - are performed, and promise of their using in clusters is demonstrated
Download PDF:
Citation:
Kuzminskiy M.B., Mendkovich A.S. (2004) Computational resources of clusters and their using in chemical calculations. Biomeditsinskaya Khimiya, 50(application 1), 101-116.
Kuzminskiy M.B. et al. Computational resources of clusters and their using in chemical calculations // Biomeditsinskaya Khimiya. - 2004. - V. 50. -N application 1. - P. 101-116.
Kuzminskiy M.B. et al., "Computational resources of clusters and their using in chemical calculations." Biomeditsinskaya Khimiya 50.application 1 (2004): 101-116.
Kuzminskiy, M. B., Mendkovich, A. S. (2004). Computational resources of clusters and their using in chemical calculations. Biomeditsinskaya Khimiya, 50(application 1), 101-116.
References
Танненбаум Э.(2002), Архитектура компьютера (пер. с англ.), Изд-во "Питер", М. Scholar google search
Столлингс У. (2002), Структурная организация и архитектура компьютерных систем (пер. с англ.), Изд-во "Вильямс", М. Scholar google search
Кузьминский М., Волков Д. (1995) , Открытые системы, 6, 33 - 40. Scholar google search
Кузьминский М., Мускатин А.(2001), Открытые системы, 7 - 8, 17 - 22. Scholar google search
Кузьминский М.Б., Мендкович А.С. и др. (2002), в: Высокопроизводительные параллельные вычисления на кластерных системах", Сб. материалов II Международного научно-практического семинара, 26-29 ноября 2002 г., Изд-во ННГУ, Н. Новгород, с.169 - 174. Scholar google search
Корнеев В.В.(1999), Параллельные вычислительные системы, Изд-во Нолидж, М. Scholar google search
Андреев А., Воеводин В., Жуматий С. (2000), Открытые системы, 5 - 6, 9 - 14. Scholar google search
Guest M.F. "Performance of Various Computers in Computational Chemistry"(2000), Technical Report, Daresburgy Lab., Cheshire, UK. Scholar google search
SGI Computational Chemistry Applications Performance Report.Spring 2002 (2002), Silicon Graphics, Inc. Scholar google search
Немнюгин С., Стесик О. (2002) Параллельное программирование для многопроцесорных вычислительных систем, изд-во БХВ-Петербург, СПб. Scholar google search
SGI Computational Chemistry Applications Performance Report.Fall 2000 (2000), Silicon Graphics, Inc. Scholar google search
Gorb L.,Yanov I., Leszczynski J. (2000) Parallel Computing, 26, 1043 - 1060. Scholar google search
Hawick K.A., Grove D.A., Coddington P.D., Buntine M.A. (2000) Commodity Cluster Computing for Computational Chemistry, Technical Report DHPC-073, Adelaide Univ. (Australia) . Scholar google search
Gaussian 98, Revision A.11.3, Frisch M. J., Trucks G. W., Schlegel H. B., Scuseria G. E., Robb M. A., Cheeseman J. R., Zakrzewski V. G., Montgomery J. A., Stratmann R. E., Burant J. C., Dapprich S., Millam J. M., Daniels A. D., Kudin K. N., Strain M. C., Farkas O., Tomasi J., Barone V., Cossi M., Cammi R., Mennucci B., Pomelli C., Adamo C., Clifford S., Ochterski J., Petersson G. A., Ayala P. Y., Cui Q., Morokuma K., Malick D. K., Rabuck A. D., Raghavachari K., Foresman J. B., Cioslowski J., Ortiz J. V., Baboul A. G., Stefanov B. B., Liu G., Liashenko A., Piskorz P., Komaromi I., Gomperts R., Martin R. L., Fox D. J., Keith T., Al-Laham M. A., Peng C. Y., Nanayakkara A., Gonzalez C., Challacombe M., Gill P. M. W., Johnson B., Chen W., Wong M. W., Andres J. L., Gonzalez C., Head-Gordon M., Replogle E. S., and Pople J. A., Gaussian, Inc., Pittsburgh PA, 1998. Scholar google search
Schmidt M.W., Baldridge K.K., Boatz J.A., Elbert S.T., Gordon M.S., Jensen J.H., Koseki S., Matsunaga N., Nguyen K.A., Su S., Windus T.L., Dupuis M., Montgomery J.A.(1993), J. Comput. Chem.,14, 1347 - 1363. Scholar google search