context("Test the optimising function point.profile")
system("rm -r tests/testthat/Profile-Results")
system("rm -r Profile-Results")
library(ProfileIroning)
set.seed(1)
inits <- c(p1 = 3, p2 = 4, p3 = -2, p4 = 2, p5 = 0)
#create data with standard deviation of 1
x.values <- 1:7
y.values <- 9 * x.values^2 - exp(2 * x.values)
sd.y.values <- rep(1,7)
#define initial parameter values
inits <- c(p1 = 3, p2 = 4, p3 = -2, p4 = 2, p5 = 0)
#define cost function that returns the negative log-likelihood
cost_function <- function(parms, x.vals, y.vals, sd.y){
# restrict the search range to -5 to +5
if(max(abs(parms)) > 5){
return(NA)
}
with(as.list(c(parms)), {
res <- p1*4 + p2*x.vals + p3^2*x.vals^2 + p4*sin(x.vals) - exp(p5*x.vals)
diff <- sum((res - y.vals)^2/sd.y)
})
}
#perform model selection
res <- create.profile(which.par = "p1",
par.names = inits,
range = list(seq(0, 2, 0.2)),
fit.fn = cost_function,
homedir = getwd(),
optim.runs = 2,
future.off = TRUE,
x.vals = x.values,
y.vals = y.values,
sd.y = sd.y.values)
test_that("Gives the correct output", {
expect_equal(as.numeric(round(res[11,2])), 2)
})
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