skip_if_offline()
skip_if_not_installed("VGAM")
data("hunua", package = "VGAM")
m1 <- download_model("vgam_1")
m2 <- download_model("vgam_2")
skip_if(is.null(m1))
skip_if(is.null(m2))
test_that("model_info", {
expect_true(model_info(m1)$is_binomial)
expect_true(model_info(m2)$is_binomial)
expect_false(model_info(m1)$is_bayesian)
expect_false(model_info(m2)$is_bayesian)
})
test_that("find_predictors", {
expect_identical(find_predictors(m1), list(conditional = c("vitluc", "altitude")))
expect_identical(
find_predictors(m1, flatten = TRUE),
c("vitluc", "altitude")
)
expect_null(find_predictors(m1, effects = "random"))
expect_identical(find_predictors(m2), list(conditional = c("vitluc", "altitude")))
expect_identical(
find_predictors(m2, flatten = TRUE),
c("vitluc", "altitude")
)
expect_null(find_predictors(m2, effects = "random"))
})
test_that("find_random", {
expect_null(find_random(m1))
expect_null(find_random(m2))
})
test_that("get_random", {
expect_warning(get_random(m1))
expect_warning(get_random(m2))
})
test_that("find_response", {
expect_identical(find_response(m1), "agaaus")
expect_identical(find_response(m2), "cbind(agaaus, kniexc)")
expect_identical(find_response(m2, combine = FALSE), c("agaaus", "kniexc"))
})
test_that("get_response", {
expect_identical(get_response(m1), hunua$agaaus)
expect_equal(
get_response(m2),
data.frame(agaaus = hunua$agaaus, kniexc = hunua$kniexc),
ignore_attr = TRUE
)
})
test_that("get_predictors", {
expect_identical(colnames(get_predictors(m1)), c("vitluc", "altitude"))
expect_identical(colnames(get_predictors(m2)), c("vitluc", "altitude"))
})
test_that("link_inverse", {
expect_equal(link_inverse(m1)(0.2), plogis(0.2), tolerance = 1e-5)
expect_equal(link_inverse(m2)(0.2), plogis(0.2), tolerance = 1e-5)
})
test_that("get_data", {
expect_identical(nrow(get_data(m1)), 392L)
expect_identical(nrow(get_data(m2)), 392L)
expect_identical(colnames(get_data(m1)), c("agaaus", "vitluc", "altitude"))
expect_identical(
colnames(get_data(m2)),
c("agaaus", "kniexc", "vitluc", "altitude")
)
})
test_that("find_formula", {
expect_length(find_formula(m1), 1)
expect_equal(
find_formula(m1),
list(conditional = as.formula("agaaus ~ vitluc + s(altitude, df = 2)")),
ignore_attr = TRUE
)
expect_length(find_formula(m2), 1)
expect_equal(
find_formula(m2),
list(
conditional = as.formula("cbind(agaaus, kniexc) ~ vitluc + s(altitude, df = c(2, 3))")
),
ignore_attr = TRUE
)
})
test_that("find_terms", {
expect_identical(
find_terms(m1),
list(
response = "agaaus",
conditional = c("vitluc", "s(altitude, df = 2)")
)
)
expect_identical(
find_terms(m1, flatten = TRUE),
c("agaaus", "vitluc", "s(altitude, df = 2)")
)
expect_identical(
find_terms(m2),
list(
response = "cbind(agaaus, kniexc)",
conditional = c("vitluc", "s(altitude, df = c(2, 3))")
)
)
expect_identical(
find_terms(m2, flatten = TRUE),
c(
"cbind(agaaus, kniexc)",
"vitluc",
"s(altitude, df = c(2, 3))"
)
)
})
test_that("find_variables", {
expect_identical(
find_variables(m1),
list(
response = "agaaus",
conditional = c("vitluc", "altitude")
)
)
expect_identical(
find_variables(m1, flatten = TRUE),
c("agaaus", "vitluc", "altitude")
)
expect_identical(find_variables(m2), list(
response = c("agaaus", "kniexc"),
conditional = c("vitluc", "altitude")
))
expect_identical(
find_variables(m2, flatten = TRUE),
c("agaaus", "kniexc", "vitluc", "altitude")
)
})
test_that("n_obs", {
expect_identical(n_obs(m1), 392L)
expect_identical(n_obs(m2), 392L)
})
test_that("linkfun", {
expect_false(is.null(link_function(m1)))
expect_false(is.null(link_function(m2)))
})
test_that("find_parameters", {
expect_identical(
find_parameters(m1),
list(
conditional = c("(Intercept)", "vitluc"),
smooth_terms = "s(altitude, df = 2)"
)
)
expect_identical(nrow(get_parameters(m1)), 3L)
expect_identical(
get_parameters(m1)$Parameter,
c("(Intercept)", "vitluc", "s(altitude, df = 2)")
)
expect_identical(
find_parameters(m2),
list(
conditional = c(
"(Intercept):1",
"(Intercept):2",
"vitluc:1",
"vitluc:2"
),
smooth_terms = c("s(altitude, df = c(2, 3)):1", "s(altitude, df = c(2, 3)):2")
)
)
expect_identical(nrow(get_parameters(m2)), 6L)
expect_identical(
get_parameters(m2)$Parameter,
c(
"(Intercept):1",
"(Intercept):2",
"vitluc:1",
"vitluc:2",
"s(altitude, df = c(2, 3)):1",
"s(altitude, df = c(2, 3)):2"
)
)
})
test_that("is_multivariate", {
expect_false(is_multivariate(m1))
expect_true(is_multivariate(m2))
})
test_that("find_statistic", {
expect_identical(find_statistic(m1), "chi-squared statistic")
expect_identical(find_statistic(m2), "chi-squared statistic")
})
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