diff options
Diffstat (limited to 'man/mkinmod.Rd')
| -rw-r--r-- | man/mkinmod.Rd | 27 |
1 files changed, 21 insertions, 6 deletions
diff --git a/man/mkinmod.Rd b/man/mkinmod.Rd index f71ebfb3..77319aac 100644 --- a/man/mkinmod.Rd +++ b/man/mkinmod.Rd @@ -13,7 +13,9 @@ mkinmod( speclist = NULL, quiet = FALSE, verbose = FALSE, - cf_dir = NULL + dll_dir = NULL, + unload = FALSE, + overwrite = FALSE ) \method{print}{mkinmod}(x, ...) @@ -53,8 +55,16 @@ argument. Default is NULL.} \item{verbose}{If \code{TRUE}, passed to \code{\link[inline:cfunction]{inline::cfunction()}} if applicable to give detailed information about the C function being built.} -\item{cf_dir}{Directory where CFunc objects should be saved. Specifying -'cf_dir' without specifying a 'name' for the object is an error.} +\item{dll_dir}{Directory where an DLL object, if generated internally by +\code{\link[inline:cfunction]{inline::cfunction()}}, should be saved. The DLL will only be stored in a +permanent location for use in future sessions, if 'dll_dir' and 'name' +are specified.} + +\item{unload}{If a DLL from the target location in 'dll_dir' is already +loaded, should that be unloaded first?} + +\item{overwrite}{If a file exists at the target DLL location in 'dll_dir', +should this be overwritten?} \item{x}{An \code{\link{mkinmod}} object.} @@ -120,6 +130,7 @@ For kinetic models with more than one observed variable, a symbolic solution of the system of differential equations is included in the resulting mkinmod object in some cases, speeding up the solution. +If a C compiler is found by \code{\link[pkgbuild:has_compiler]{pkgbuild::has_compiler()}} and there is more than one observed variable in the specification, C code is generated for evaluating the differential equations, compiled using \code{\link[inline:cfunction]{inline::cfunction()}} and added to the resulting mkinmod object. @@ -143,12 +154,16 @@ print(SFO_SFO) \dontrun{ fit_sfo_sfo <- mkinfit(SFO_SFO, FOCUS_2006_D, quiet = TRUE, solution_type = "deSolve") - # Now supplying full names used for plotting, and write to user defined location + # Now supplying compound names used for plotting, and write to user defined location SFO_SFO.2 <- mkinmod( parent = mkinsub("SFO", "m1", full_name = "Test compound"), m1 = mkinsub("SFO", full_name = "Metabolite M1"), - name = "SFOSFO", cf_dir = tempdir()) -fit_sfo_sfo <- mkinfit(SFO_SFO.2, FOCUS_2006_D, quiet = TRUE, solution_type = "deSolve") + name = "SFO_SFO", dll_dir = "~/dll", unload = TRUE, overwrite = TRUE) +# Now we can save the model and restore it in a new session +saveRDS(SFO_SFO.2, file = "~/SFO_SFO.rds") +# Terminate the R session here if you would like to check, and then do +SFO_SFO.3 <- readRDS("~/SFO_SFO.rds") +fit_sfo_sfo <- mkinfit(SFO_SFO.3, FOCUS_2006_D, quiet = TRUE, solution_type = "deSolve") # Show details of creating the C function SFO_SFO <- mkinmod( |