static integratorInstance_t *callIntegrator(odeModel_t *om, cvodeSettings_t *set) { char *tout; char *nout; double time; int printstep; integratorInstance_t *ii; printf("Please enter end time in seconds: "); tout = get_line(stdin); tout = util_trim(tout); printf("... and the number of output times: "); nout = get_line(stdin); nout = util_trim(nout); if ( !(time = (float) floor(atof(tout))) || !(printstep = (int) atof(nout)) ) { printf("\nEntered outtime %s or number of output times %s\n", tout, nout); printf("could not be converted to a number. Try again, please!\n"); } else { CvodeSettings_setTime(set, time, printstep); CvodeSettings_dump(set); ii = IntegratorInstance_create(om, set); integrator(ii, 1, 0, stdout); SolverError_dumpAndClearErrors(); return (ii); } return NULL; }
int doIt(void) { int i ; cvodeSettings_t *settings, *set2; variableIndex_t *s1, *s2; integratorInstance_t *integratorInstance; odeModel_t *model = ODEModel_createFromFile("basic-model1-forward-l2.xml"); RETURN_ON_ERRORS_WITH(1) s1 = ODEModel_getVariableIndex(model, "S1"); s2 = ODEModel_getVariableIndex(model, "S2"); /* Creating settings with default values */ settings = CvodeSettings_create(); /* Setting end time to .1, number of time steps to 1 and NULL instead of an optional predefined time series (double *); due to Indefinitely == 1, Printstep 5 will be ignored and Time = 0.1 will be used as timestep for infinite integration */ CvodeSettings_setTime(settings, .1, 5); /* Setting Cvode Parameters: absolute tolerance, relative tolerance and maximal internal step, respectively */ CvodeSettings_setErrors(settings, 1e-20, 1e-14, 500); /* Setting Integration Switches */ CvodeSettings_setMethod(settings, 1, 12); CvodeSettings_setJacobian(settings, 1); CvodeSettings_setIndefinitely(settings, 1); CvodeSettings_setHaltOnEvent(settings, 0); CvodeSettings_setSteadyState(settings, 0); CvodeSettings_setStoreResults(settings, 0); CvodeSettings_setSensitivity(settings, 0); /* first integration run */ printf("\nFIRST INTEGRATION RUN WITH:\n"); CvodeSettings_dump(settings); integratorInstance = IntegratorInstance_create(model, settings); RETURN_ON_ERRORS_WITH(1); /* print variable (ODE, assignments) and constant names */ printf("#time "); IntegratorInstance_dumpNames(integratorInstance); /* print initial conditions and parameters */ IntegratorInstance_dumpData(integratorInstance); for (i=0; i != 12; i++) { /* setting the next time step, uncomment the following function call to see its effect */ /* IntegratorInstance_setNextTimeStep(integratorInstance, 0.2*(i+1)); */ IntegratorInstance_integrateOneStep(integratorInstance); RETURN_ON_ERRORS_WITH(1); /* print current data */ IntegratorInstance_dumpData(integratorInstance); } /* now, let's try again, with different settings */ set2 = CvodeSettings_create(); /* as Indefinitely will be set to 0, a finite integration to time 0.24 in 6 steps will be run */ CvodeSettings_setTime(set2, 1.2, 6); CvodeSettings_setErrors(set2, 1e-16, 1e-14, 500); /* switches can be set all together, same order as above */ CvodeSettings_setSwitches(set2, 1, 0, 0, 0, 0, 0, 0); printf("\nNOW, LET'S TRY AGAIN WITH DIFFERENT SETTINGS:\n"); CvodeSettings_dump(set2); IntegratorInstance_set(integratorInstance, set2); IntegratorInstance_dumpData(integratorInstance); while( !IntegratorInstance_timeCourseCompleted(integratorInstance) ) { IntegratorInstance_integrateOneStep(integratorInstance); RETURN_ON_ERRORS_WITH(1); IntegratorInstance_dumpData(integratorInstance); } printf("\n\nFINISHED SUCCESSFULLY!\n"); printf("Please, note the different values e.g. at time 1.2.\n"); printf("The values for the first run a more exact, due to the much\n"); printf("lower error tolerances. The error tolerances have to be\n"); printf("adapted to the ranges of each model!!\n\n"); IntegratorInstance_free(integratorInstance); ODEModel_free(model); VariableIndex_free(s1); VariableIndex_free(s2); CvodeSettings_free(settings); CvodeSettings_free(set2); return 0; }