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Restore tests of internal functions #32

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Apr 22, 2024
Merged

Restore tests of internal functions #32

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157 changes: 78 additions & 79 deletions tests/testthat/test-basics.R
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Original file line number Diff line number Diff line change
Expand Up @@ -5,23 +5,23 @@
# 1. give_noparams
# ----------------

#test_that("each distribution works", {
# expect_equal(psm3mkv::give_noparams_par("exp"), 1)
# expect_equal(psm3mkv::give_noparams_par("weibullPH"), 2)
# expect_equal(psm3mkv::give_noparams_par("weibull"), 2)
# expect_equal(psm3mkv::give_noparams_par("llogis"), 2)
# expect_equal(psm3mkv::give_noparams_par("lnorm"), 2)
# expect_equal(psm3mkv::give_noparams_par("gamma"), 2)
# expect_equal(psm3mkv::give_noparams_par("gompertz"), 2)
# expect_equal(psm3mkv::give_noparams_par("gengamma"), 3)
# expect_equal(psm3mkv::give_noparams_par("gengamma.orig"), 3)
#})
test_that("each distribution works", {
expect_equal(psm3mkv:::give_noparams_par("exp"), 1)
expect_equal(psm3mkv:::give_noparams_par("weibullPH"), 2)
expect_equal(psm3mkv:::give_noparams_par("weibull"), 2)
expect_equal(psm3mkv:::give_noparams_par("llogis"), 2)
expect_equal(psm3mkv:::give_noparams_par("lnorm"), 2)
expect_equal(psm3mkv:::give_noparams_par("gamma"), 2)
expect_equal(psm3mkv:::give_noparams_par("gompertz"), 2)
expect_equal(psm3mkv:::give_noparams_par("gengamma"), 3)
expect_equal(psm3mkv:::give_noparams_par("gengamma.orig"), 3)
})

#test_that("entering >1 distribution yields an error", {
# expect_error(psm3mkv::give_noparams_par(c("exp", "lnorm")))
# expect_error(psm3mkv::give_noparams_par(c("gengamma", "turnip")))
# expect_error(psm3mkv::give_noparams_par(c("carrot", "llogis")))
#})
test_that("entering >1 distribution yields an error", {
expect_error(psm3mkv:::give_noparams_par(c("exp", "lnorm")))
expect_error(psm3mkv:::give_noparams_par(c("gengamma", "turnip")))
expect_error(psm3mkv:::give_noparams_par(c("carrot", "llogis")))
})

# Check with splines

Expand Down Expand Up @@ -53,17 +53,17 @@ spec_spl3 <- list(gammas = fit_spl3$coefficients,
knots = fit_spl3$aux$knots,
scale = fit_spl3$scale)

#test_that("Spline specifications give correct parameter numbers", {
# expect_equal(psm3mkv::give_noparams(type="Splines", spec=spec_spl1), 3)
# expect_equal(psm3mkv::give_noparams(type="Splines", spec=spec_spl2), 4)
# expect_equal(psm3mkv::give_noparams(type="Splines", spec=spec_spl3), 5)
#})
test_that("Spline specifications give correct parameter numbers", {
expect_equal(psm3mkv:::give_noparams(type="Splines", spec=spec_spl1), 3)
expect_equal(psm3mkv:::give_noparams(type="Splines", spec=spec_spl2), 4)
expect_equal(psm3mkv:::give_noparams(type="Splines", spec=spec_spl3), 5)
})

#test_that("Parametric specification give correct parameter numbers", {
# expect_equal(psm3mkv::give_noparams(type="par", spec=list(dist="exp")), 1)
# expect_equal(psm3mkv::give_noparams(type="Parametrci", spec=list(dist="weibullPH")), 2)
# expect_equal(psm3mkv::give_noparams(type="paR", spec=list(dist="gengamma")), 3)
#})
test_that("Parametric specification give correct parameter numbers", {
expect_equal(psm3mkv:::give_noparams(type="par", spec=list(dist="exp")), 1)
expect_equal(psm3mkv:::give_noparams(type="Parametrci", spec=list(dist="weibullPH")), 2)
expect_equal(psm3mkv:::give_noparams(type="paR", spec=list(dist="gengamma")), 3)
})

# 2. calc_rmd
# -----------
Expand Down Expand Up @@ -260,57 +260,56 @@ test_that("Calling restricted mean function correctly, splines", {

# calc_surv(time=0) = 0

#test_that("survival at time zero is 1, params", {
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="exp", pars=0.2)),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="weibullPH", pars=c(1,1))),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="weibull", pars=c(1,1))),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="llogis", pars=c(4,3))),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="lnorm", pars=c(2,3))),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="gamma", pars=c(2,1))),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="gompertz", pars=c(0.3,0.01))),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="gengamma", pars=c(2.5,1.5,0.5))),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="par", spec=list(dist="gengamma.orig", pars=c(0.1,10,0.5))),
# 1
# )
#})

#test_that("survival at time zero is 1, splines", {
# expect_equal(
# psm3mkv::calc_surv(time=0, type="splines", spec=spec_spl1),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="splines", spec=spec_spl2),
# 1
# )
# expect_equal(
# psm3mkv::calc_surv(time=0, type="splines", spec=spec_spl3),
# 1
# )
#})
test_that("survival at time zero is 1, params", {
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="exp", pars=0.2)),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="weibullPH", pars=c(1,1))),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="weibull", pars=c(1,1))),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="llogis", pars=c(4,3))),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="lnorm", pars=c(2,3))),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="gamma", pars=c(2,1))),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="gompertz", pars=c(0.3,0.01))),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="gengamma", pars=c(2.5,1.5,0.5))),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="par", spec=list(dist="gengamma.orig", pars=c(0.1,10,0.5))),
1
)
})

test_that("survival at time zero is 1, splines", {
expect_equal(
psm3mkv:::calc_surv(time=0, type="splines", spec=spec_spl1),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="splines", spec=spec_spl2),
1
)
expect_equal(
psm3mkv:::calc_surv(time=0, type="splines", spec=spec_spl3),
1
)
})