if (.Platform$OS.type == "windows" && requiet("MCMCglmm")) {
data(PlodiaPO)
m1 <- MCMCglmm(
PO ~ plate,
random = ~FSfamily,
data = PlodiaPO,
verbose = FALSE,
nitt = 1300,
burnin = 300,
thin = 1
)
test_that("model_info", {
expect_true(model_info(m1)$is_mixed)
expect_true(model_info(m1)$is_linear)
})
test_that("find_predictors", {
expect_identical(find_predictors(m1), list(conditional = "plate"))
expect_identical(find_predictors(m1, flatten = TRUE), "plate")
expect_identical(
find_predictors(m1, effects = "random"),
list(random = "FSfamily")
)
})
test_that("find_random", {
expect_equal(find_random(m1), list(random = "FSfamily"))
})
test_that("get_random", {
expect_equal(get_random(m1), data.frame(FSfamily = PlodiaPO$FSfamily), ignore_attr = TRUE)
})
test_that("find_response", {
expect_identical(find_response(m1), "PO")
})
test_that("get_response", {
expect_equal(get_response(m1), PlodiaPO$PO)
})
test_that("get_predictors", {
expect_equal(colnames(get_predictors(m1)), "plate")
})
test_that("link_inverse", {
expect_equal(link_inverse(m1)(0.5), 0.5, tolerance = 1e-1)
})
test_that("get_data", {
expect_equal(nrow(get_data(m1, verbose = FALSE)), 511)
expect_equal(colnames(get_data(m1, verbose = FALSE)), c("FSfamily", "PO", "plate"))
})
test_that("find_formula", {
expect_length(find_formula(m1), 2)
expect_equal(
find_formula(m1),
list(
conditional = as.formula("PO ~ plate"),
random = as.formula("~FSfamily")
),
ignore_attr = TRUE
)
})
test_that("find_terms", {
expect_equal(
find_terms(m1),
list(
response = "PO",
conditional = "plate",
random = "FSfamily"
)
)
expect_equal(find_terms(m1, flatten = TRUE), c("PO", "plate", "FSfamily"))
})
test_that("n_obs", {
expect_null(n_obs(m1))
})
test_that("linkfun", {
expect_equal(link_function(m1)(0.5), 0.5, tolerance = 1e-1)
})
test_that("find_parameters", {
expect_equal(
find_parameters(m1),
list(
conditional = c("(Intercept)", "plate"),
random = "FSfamily"
)
)
expect_equal(nrow(get_parameters(m1, summary = TRUE)), 2)
expect_equal(nrow(get_parameters(m1, summary = FALSE)), 1000)
expect_equal(get_parameters(m1, summary = TRUE)$Parameter, c("(Intercept)", "plate"))
expect_equal(colnames(get_parameters(m1, summary = FALSE)), c("(Intercept)", "plate"))
expect_equal(
get_parameters(m1, effects = "random", summary = TRUE)$Parameter,
"FSfamily"
)
})
test_that("is_multivariate", {
expect_false(is_multivariate(m1))
})
test_that("find_statistic", {
expect_null(find_statistic(m1))
})
}
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