water@blake.u.washington.edu (Hong Li) (01/16/91)
Hi, We all know that there are many programs available for computer simulation of chemical reactions. THe speed of the simulation is still the main concern for microcomputer programs, especially for those can estimate kinetic parameters with fitting. I would like to find out which program has the best (fastest) algorithm. The following is a set of enzymatic reactions I involved. I have a program which took 3 minutes to finished the simulation process described below. Programs with simple algorithms will take hours to finish this job. Computer : IMB-AT Compatable (with 287 math coprocessor) CPU Speed : 16 Mhz species and initial concentrations: e 1.52e-6 o 9.75e-4 al 1e-3 ad 0 h 0 eo 0 eo1 0 eh 0 eoal 0 ehad 0 reactions and k's e + o -> eo k=4.5e7 eo -> e + o k=2.3e4 eo -> eo1 k=620 eo1 -> eo k=64 eo1 + al -> eoal k=9.7e5 eoal -> eo1 + al k=84 eoal -> ehad k=380 ehad -> eoal k=600 ehad -> eh + ad k=17 eh + ad -> ehad k=2.8e6 eh -> e + h k=5.5 e + h -> eh k=1.1e7 reaction time: 50 seconds accuracy: 1.0e-5 relative local error. The program I used is written in C and is a stand-alone program, ie. no separate compilation of formula (as in some FORTRAN programs) is required. If you have a program handy, I would appreciate your trying of similar simulations and letting me know the result, better or worse. If the program you have won't move at all, try to reduce the reaction time. I will post the summary if there are enough responds. Thank you very much for reading. Please send respond to: water@blake.u.washington.edu Hong Li MS Computer Science, Ph.D. candidate Department of Chemistry University of Wasington Seattle, WA 98195