#' Create degradation functions for known analytical solutions #' #' @param spec List of model specifications as contained in mkinmod objects #' @param use_of_ff Minimum or maximum use of formation fractions #' @return Degradation function to be attached to mkinmod objects #' @examples #' #' SFO_SFO <- mkinmod( #' parent = mkinsub("SFO", "m1"), #' m1 = mkinsub("SFO")) #' fit <- mkinfit(SFO_SFO, FOCUS_2006_D, quiet = TRUE) create_deg_func <- function(spec, use_of_ff = c("min", "max")) { use_of_ff <- match.arg(use_of_ff) min_ff <- use_of_ff == "min" obs_vars <- names(spec) n <- character(0) parent <- obs_vars[1] n[1] <- paste0(parent, " = ", spec[[1]]$type, ".solution(outtimes, odeini['", parent, if (spec[[1]]$type == "SFORB") "_free", "'], ", switch(spec[[1]]$type, SFO = paste0("k_", parent, if (min_ff) "_sink" else "", ")"), FOMC = "alpha, beta)", IORE = paste0("k__iore_", parent, if (min_ff) "_sink" else "", ", N_", parent, ")"), DFOP = "k1, k2, g)", SFORB = paste0("k_", parent, "_free_bound, k_", parent, "_bound_free, k_", parent, "_free", if (min_ff) "_sink" else "", ")"), HS = "k1, k2, tb)", logistic = "kmax, k0, r)" ) ) all_n <- paste(n, collapse = ",\n") f_body <- paste0("{\n", "out <- with(as.list(odeparms), {\n", "data.frame(\n", "time = outtimes,\n", all_n, "\n", ")})\n", "return(out)\n}\n" ) deg_func <- function(odeini, odeparms, outtimes) {} body(deg_func) <- parse(text = f_body) return(deg_func) }