rxodeTest(
{
context("Data Table & tibble output")
test_that("data.table", {
for (rt in c("data.table", "tbl")) {
mod <- RxODE({
d / dt(intestine) <- -a * intestine
d / dt(blood) <- a * intestine - b * blood
})
et <- eventTable(time.units = "days")
et$add.sampling(seq(0, 10, length.out = 50))
et$add.dosing(
dose = 2 / 24, rate = 2, strt.time = 0,
nbr.doses = 10, dosing.interval = 1
)
p <- data.frame(a = 6, b = seq(0.4, 0.9, length.out = 4))
p2 <- rxSolve(mod, p, et, cores = 1, returnType = rt)
expect_true(inherits(p2, rt))
dat <- readRDS(file = test_path("test-data-setup.rds"))
mod2 <- RxODE({
C2 <- centr / V2
C3 ~ peri / V3
CL ~ TCL * exp(eta.Cl)
d / dt(depot) ~ -KA * depot
d / dt(centr) ~ KA * depot - CL * C2 - Q * C2 + Q * C3
d / dt(peri) ~ Q * C2 - Q * C3
d / dt(eff) <- Kin - Kout * (1 - C2 / (EC50 + C2)) * eff
eff(0) <- 1000
e1 <- err1
e2 <- err2
resp <- eff + e1
pk <- C2 * exp(e2)
})
sigma <- diag(2) * 0.05
dimnames(sigma) <- list(c("err1", "err2"), c("err1", "err2"))
ev <- eventTable(amount.units = "mg", time.units = "hours") %>%
add.dosing(dose = 10000, nbr.doses = 10, dosing.interval = 12, dosing.to = 2) %>%
add.dosing(dose = 20000, nbr.doses = 5, start.time = 120, dosing.interval = 24, dosing.to = 2) %>%
add.sampling(0:240)
pk3 <- rxSolve(mod2, c(
KA = 2.94E-01, TCL = 1.86E+01, V2 = 4.02E+01, Q = 1.05E+01, V3 = 2.97E+02,
Kin = 1, Kout = 1, EC50 = 200
),
omega = matrix(0.2, dimnames = list("eta.Cl", "eta.Cl")),
nSub = 4, ev, sigma = sigma, cores = 2, returnType = rt
)
expect_true(inherits(pk3, rt))
## Should be no warning here...
pk7a <- rxSolve(mod2, c(
KA = 2.94E-01, TCL = 1.86E+01, V2 = 4.02E+01, Q = 1.05E+01, V3 = 2.97E+02,
Kin = 1, Kout = 1, EC50 = 200
),
omega = matrix(0.2, dimnames = list("eta.Cl", "eta.Cl")),
sigma = sigma, dat, cores = 1, returnType = rt
)
expect_true(inherits(pk7a, rt))
thetaMat <- diag(3) * 0.01
dimnames(thetaMat) <- list(NULL, c("KA", "TCL", "V2"))
pk8 <- rxSolve(mod2, c(
KA = 2.94E-01, TCL = 1.86E+01, V2 = 4.02E+01, Q = 1.05E+01, V3 = 2.97E+02,
Kin = 1, Kout = 1, EC50 = 200
),
omega = matrix(0.2, dimnames = list("eta.Cl", "eta.Cl")),
thetaMat = thetaMat, sigma = sigma, dat, nStud = 4, cores = 1, returnType = rt
)
expect_true(inherits(pk8, rt))
}
})
},
test = "lvl2"
)
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