library(testthat)
library(recipes)
library(splines)
skip_if_not_installed("modeldata")
data(biomass, package = "modeldata")
# ------------------------------------------------------------------------------
test_that("correct basis functions", {
skip_if_not_installed("splines2")
library(splines2)
biomass_tr <- biomass[biomass$dataset == "Training", ]
biomass_te <- biomass[biomass$dataset == "Testing", ]
rec <- recipe(HHV ~ carbon + hydrogen + oxygen + nitrogen + sulfur,
data = biomass_tr
)
with_ns <- rec %>%
step_spline_natural(carbon, hydrogen, deg_free = 5)
with_ns <- prep(with_ns, training = biomass_tr, verbose = FALSE)
with_ns_pred_tr <- bake(with_ns, new_data = biomass_tr)
with_ns_pred_te <- bake(with_ns, new_data = biomass_te)
carbon_ns_tr_exp <- naturalSpline(biomass_tr$carbon, df = 5)
hydrogen_ns_tr_exp <- naturalSpline(biomass_tr$hydrogen, df = 5)
carbon_ns_te_exp <- predict(carbon_ns_tr_exp, biomass_te$carbon)
hydrogen_ns_te_exp <- predict(hydrogen_ns_tr_exp, biomass_te$hydrogen)
expect_equal(
unname(attr(carbon_ns_tr_exp, "knots")),
with_ns$steps[[1]]$results$carbon$knots
)
expect_equal(
unname(attr(carbon_ns_tr_exp, "Boundary.knots")),
with_ns$steps[[1]]$results$carbon$Boundary.knots
)
expect_equal(
unname(attr(hydrogen_ns_tr_exp, "knots")),
with_ns$steps[[1]]$results$hydrogen$knots
)
expect_equal(
unname(attr(hydrogen_ns_tr_exp, "Boundary.knots")),
with_ns$steps[[1]]$results$hydrogen$Boundary.knots
)
carbon_ns_tr_res <- as.matrix(with_ns_pred_tr[, grep("carbon", names(with_ns_pred_tr))])
colnames(carbon_ns_tr_res) <- NULL
hydrogen_ns_tr_res <- as.matrix(with_ns_pred_tr[, grep("hydrogen", names(with_ns_pred_tr))])
colnames(hydrogen_ns_tr_res) <- NULL
carbon_ns_te_res <- as.matrix(with_ns_pred_te[, grep("carbon", names(with_ns_pred_te))])
colnames(carbon_ns_te_res) <- 1:ncol(carbon_ns_te_res)
hydrogen_ns_te_res <- as.matrix(with_ns_pred_te[, grep("hydrogen", names(with_ns_pred_te))])
colnames(hydrogen_ns_te_res) <- 1:ncol(hydrogen_ns_te_res)
## remove attributes
carbon_ns_tr_exp <- matrix(carbon_ns_tr_exp, ncol = 5)
carbon_ns_te_exp <- matrix(carbon_ns_te_exp, ncol = 5)
hydrogen_ns_tr_exp <- matrix(hydrogen_ns_tr_exp, ncol = 5)
hydrogen_ns_te_exp <- matrix(hydrogen_ns_te_exp, ncol = 5)
dimnames(carbon_ns_tr_res) <- NULL
dimnames(carbon_ns_te_res) <- NULL
dimnames(hydrogen_ns_tr_res) <- NULL
dimnames(hydrogen_ns_te_res) <- NULL
expect_equal(carbon_ns_tr_res, carbon_ns_tr_exp)
expect_equal(carbon_ns_te_res, carbon_ns_te_exp)
expect_equal(hydrogen_ns_tr_res, hydrogen_ns_tr_exp)
expect_equal(hydrogen_ns_te_res, hydrogen_ns_te_exp)
})
test_that("printing", {
biomass_tr <- biomass[biomass$dataset == "Training", ]
biomass_te <- biomass[biomass$dataset == "Testing", ]
rec <- recipe(HHV ~ carbon + hydrogen + oxygen + nitrogen + sulfur,
data = biomass_tr
)
with_ns <- rec %>% step_spline_natural(carbon, hydrogen)
expect_snapshot(print(with_ns))
expect_snapshot(prep(with_ns))
})
test_that("tunable", {
biomass_tr <- biomass[biomass$dataset == "Training", ]
biomass_te <- biomass[biomass$dataset == "Testing", ]
rec <- recipe(HHV ~ carbon + hydrogen + oxygen + nitrogen + sulfur,
data = biomass_tr
)
rec <-
recipe(~., data = iris) %>%
step_spline_natural(all_predictors())
rec_param <- tunable.step_spline_natural(rec$steps[[1]])
expect_equal(rec_param$name, c("deg_free"))
expect_true(all(rec_param$source == "recipe"))
expect_true(is.list(rec_param$call_info))
expect_equal(nrow(rec_param), 1)
expect_equal(
names(rec_param),
c("name", "call_info", "source", "component", "component_id")
)
})
test_that("empty selection prep/bake is a no-op", {
rec1 <- recipe(mpg ~ ., mtcars)
rec2 <- step_spline_natural(rec1)
rec1 <- prep(rec1, mtcars)
rec2 <- prep(rec2, mtcars)
baked1 <- bake(rec1, mtcars)
baked2 <- bake(rec2, mtcars)
expect_identical(baked1, baked2)
})
test_that("empty selection tidy method works", {
rec <- recipe(mpg ~ ., mtcars)
rec <- step_spline_natural(rec)
expect <- tibble(terms = "<none>", id = character())
expect_identical(tidy(rec, number = 1), expect)
rec_prepped <- prep(rec, mtcars)
expect_prepped <- tibble::tibble(terms = "<none>", id = rec_prepped$steps[[1]]$id)
expect_identical(tidy(rec_prepped, number = 1), expect_prepped)
})
test_that("empty printing", {
skip_if(packageVersion("rlang") < "1.0.0")
rec <- recipe(mpg ~ ., mtcars)
rec <- step_spline_natural(rec)
expect_snapshot(rec)
rec <- prep(rec, mtcars)
expect_snapshot(rec)
})
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