inst/maintenance/unit/test-iv-po.R

In mhismail/mrgsolvetk: Simulation Tool Kit for mrgsolve

# Copyright (C) 2013 - 2017  Metrum Research Group, LLC
#
# This file is part of mrgsolve.
#
# mrgsolve is free software: you can redistribute it and/or modify it
# under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, or
# (at your option) any later version.
#
# mrgsolve is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with mrgsolve.  If not, see <http://www.gnu.org/licenses/>.

library(testthat)
library(mrgsolve)
library(dplyr)
Sys.setenv(R_TESTS="")
options("mrgsolve_mread_quiet"=TRUE)


project <- file.path(system.file(package="mrgsolve"), "models")

oral <- function(dose,par,time) {
  par <- as.list(par)
  par$K <- par$CL/par$VC
  with(par, {((KA*dose)/(VC*(KA-K)))*(exp(-K*time) - exp(-KA*time))})
}
iv <- function(dose,par,time) {
  par <- as.list(par)
  par$K <- par$CL/par$VC
  with(par, (dose/VC)*exp(-K*time))

}

context("Loading a model via mread")
mod <- suppressMessages(mread("firstmodel", project,atol=1E-20, rtol=1E-12, digits=8))

out <- mrgsim(mod)
comparepo <- signif(oral(as.list(init(mod))$DEPOT, param(mod), stime(mod)), digits=8)

modiv <- mod %>% init(DEPOT=0, CENT=1000)
outiv <- mrgsim(modiv)
compareiv <- signif(iv(as.list(init(modiv))$CENT, param(modiv), stime(modiv)), digits=8)

context("Running a 1 cmt PK model with initial value of 1000")

test_that("Simulation output is of class mrgsims", {
    expect_is(out, "mrgsims")
})
test_that("The simulation model can be recovered from output", {
    expect_identical(mod, mrgsolve:::mod(out))
    expect_is(mrgsolve:::mod(out), "mrgmod")
})

test_that("CP from oral model is identical to closed form result", {
    expect_true(all(comparepo ==out$CP))
})
test_that("CP from iv model is identical to closed form result", {
    expect_true(all(compareiv == outiv$CP))
})
events1000 <- ev(amt=100, cmt=1000)
test_that("Error on dosing into non-existant compartment", {
    expect_error(mod %>% ev(events10000) %>% mrgsim())
})

# context("Testing error generation ")
# test_that("Error when parameters and compartments have same name", {
#   expect_error(mrgmod("firstmodel", project, param=list(CENT=2)))
#   expect_error(mrgmod("firstmodel", project, init=list(CL=2)))
# })
# 
# test_that("Error when parameters and compartments have same name introduced via update", {
#   expect_error(update(mod, param=list(CENT=2), strict=FALSE))
#   expect_error(update(mod, init=list(CL=2), strict=FALSE))
# })
# 
# test_that("Error when a parameter name is listed in compartments", {
#   expect_error(update(mod, init=list(CL=2), strict=FALSE))
#   expect_error(mrgmod("firstmodel", project, init=list(CL=2)))
# })
# test_that("Error  when a compartment names is listed in parameters", {
#   expect_error(update(mod, param=list(CENT=2), strict=FALSE))
#   expect_error(mrgmod("firstmodel", project, param=list(CENT=2)))
# })
# 
# bad <- update(mod, param=list(FAKEPARAMETER=22), strict=FALSE)
# test_that("Error when the number of parameters changes without recompile",{
#     expect_error(mrgsim(bad))
# })
#