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Makes an rxode2 Object

Source: R/MB_Server.R
mk_rx_obj.Rd

Creates an rxode2 object from a model (either rxode2 function or a NONMEM file)

Usage

mk_rx_obj(type, model)

Arguments

type

Type of supplied model can be "rxode2", "NONMEM"

model

List containing the relevant information about the model. This will depend on the model types.

  • rxode2: The supplied model is in the rxode2 format.

    • fcn_def: Character string containing function definition.

    • fcn_obj: Name of the funciton object created in fcn_def.

  • NONMEM: The supplied model is in NONMEM format (either a control

    • model_file: Character string containing the NONMEM model file.

Value

Results of FM_tc() when running the model. This will include a field isgood which is a boolean variable indicating success or failure. See the documentation for FM_tc() for the format returned when evaluation results in a failure and how to address those. When successful the capture field will contain the following:

  • fcn_obj: The function name.

  • rx_obj: The built rxode2 object.

Examples

fcn_def = ' my_func = function ()
   {
       description <- "One compartment PK model with linear clearance"
       ini({
           lka <- 0.45
           label("Absorption rate (Ka)")
           lcl <- 1
           label("Clearance (CL)")
           lvc <- 3.45
           label("Central volume of distribution (V)")
           propSd <- c(0, 0.5)
           label("Proportional residual error (fraction)")
       })
       model({
           ka <- exp(lka)
           cl <- exp(lcl)
           vc <- exp(lvc)
           cp <- linCmt()
           cp ~ prop(propSd)
       })

   }'
fcn_obj = "my_func"
model = list(fcn_def = fcn_def,
             fcn_obj = fcn_obj)


rx_res = mk_rx_obj("rxode2", model)
#>  
#>  
#> ℹ parameter labels from comments are typically ignored in non-interactive mode
#> ℹ Need to run with the source intact to parse comments

# function object
rx_res[["capture"]][["fcn_obj"]]
#> function () 
#> {
#>     description <- "One compartment PK model with linear clearance"
#>     ini({
#>         lka <- 0.45
#>         label("Absorption rate (Ka)")
#>         lcl <- 1
#>         label("Clearance (CL)")
#>         lvc <- 3.45
#>         label("Central volume of distribution (V)")
#>         propSd <- c(0, 0.5)
#>         label("Proportional residual error (fraction)")
#>     })
#>     model({
#>         ka <- exp(lka)
#>         cl <- exp(lcl)
#>         vc <- exp(lvc)
#>         cp <- linCmt()
#>         cp ~ prop(propSd)
#>     })
#> }
#> <environment: 0x13e466ba8>

# rxode2 object
rx_res[["capture"]][["rx_obj"]]
#>  ── rxode2-based solved PK 1-compartment model with first-order absorption ────── 
#>  ── Initalization: ──  
#> Fixed Effects ($theta): 
#>    lka    lcl    lvc propSd 
#>   0.45   1.00   3.45   0.50 
#>  ── Model (Normalized Syntax): ── 
#> function() {
#>     description <- "One compartment PK model with linear clearance"
#>     ini({
#>         lka <- 0.45
#>         label("Absorption rate (Ka)")
#>         lcl <- 1
#>         label("Clearance (CL)")
#>         lvc <- 3.45
#>         label("Central volume of distribution (V)")
#>         propSd <- c(0, 0.5)
#>         label("Proportional residual error (fraction)")
#>     })
#>     model({
#>         ka <- exp(lka)
#>         cl <- exp(lcl)
#>         vc <- exp(lvc)
#>         cp <- linCmt()
#>         cp ~ prop(propSd)
#>     })
#> }