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context("Multistart method for saem.mmkin models")
test_that("multistart works for saem.mmkin models", {
set.seed(123456)
saem_sfo_s_multi <- multistart(sfo_saem_1_reduced, n = 8, cores = n_cores,
no_random_effect = "parent_0")
anova_sfo <- anova(sfo_saem_1,
sfo_saem_1_reduced,
best(saem_sfo_s_multi),
test = TRUE
)
# On winbuilder, sfo_saem_1 gives an AIC of 1310.8, while we get 1311.7
# locally on Linux and Windows. The other, well-determined fits
# both give 1309.7
expect_equal(round(anova_sfo, 1)["sfo_saem_1_reduced", "AIC"], 1309.7)
expect_equal(round(anova_sfo, 1)["best(saem_sfo_s_multi)", "AIC"], 1309.7)
expect_true(anova_sfo[3, "Pr(>Chisq)"] > 0.2) # Local: 1, CRAN: 0.4
skip_on_cran() # Save CRAN time
set.seed(123456)
saem_biphasic_m_multi <- multistart(saem_biphasic_m, n = 8,
cores = n_cores)
expect_known_output(print(saem_biphasic_m_multi),
file = "print_multistart_biphasic.txt")
anova_biphasic <- anova(saem_biphasic_m,
best(saem_biphasic_m_multi))
# With the new starting parameters we do not improve
# with multistart any more
expect_equal(anova_biphasic[2, "AIC"], anova_biphasic[1, "AIC"],
tolerance = 1e-4)
skip_on_travis() # Plots are platform dependent
llhist_sfo <- function() llhist(saem_sfo_s_multi)
parplot_sfo <- function() parplot(saem_sfo_s_multi, ylim = c(0.5, 2))
vdiffr::expect_doppelganger("llhist for sfo fit", llhist_sfo)
vdiffr::expect_doppelganger("parplot for sfo fit", parplot_sfo)
llhist_biphasic <- function() llhist(saem_biphasic_m_multi)
parplot_biphasic <- function() parplot(saem_biphasic_m_multi,
ylim = c(0.5, 2))
vdiffr::expect_doppelganger("llhist for biphasic saemix fit", llhist_biphasic)
vdiffr::expect_doppelganger("parplot for biphasic saemix fit", parplot_biphasic)
})
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