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library(bayesplot)
context("PPC: predictive errors")
source(test_path("data-for-ppc-tests.R"))
test_that("ppc_error_hist and ppc_error_scatter return ggplot object", {
skip_if_not_installed("rstantools")
expect_gg(ppc_error_hist(y, yrep[1:5, ], binwidth = 0.1))
expect_gg(ppc_error_scatter(y, yrep[1:5, ]))
expect_gg(ppc_error_hist(y, yrep[1,, drop = FALSE], binwidth = 0.1))
expect_gg(ppc_error_scatter(y, yrep[1,, drop = FALSE]))
expect_gg(ppc_error_hist(y2, yrep2, binwidth = 0.1))
expect_gg(ppc_error_scatter(y2, yrep2))
})
test_that("ppc_error_hist_grouped returns ggplot object", {
skip_if_not_installed("rstantools")
expect_gg(ppc_error_hist_grouped(y, yrep[1:5, ], group, binwidth = 0.1))
expect_gg(ppc_error_hist_grouped(y, yrep[1,, drop = FALSE], group,
freq = FALSE, binwidth = 1))
})
test_that("ppc_error_scatter_avg returns ggplot2 object", {
skip_if_not_installed("rstantools")
expect_gg(ppc_error_scatter_avg(y, yrep))
expect_gg(ppc_error_scatter_avg(y, yrep[1:5, ]))
# when x is provided
expect_gg(ppc_error_scatter_avg(y, yrep, x = rnorm(length(y))))
expect_gg(ppc_error_scatter_avg(y, yrep[1:5, ], x = rnorm(length(y))))
})
test_that("ppc_error_scatter_avg same as ppc_error_scatter if nrow(yrep) = 1", {
skip_if_not_installed("rstantools")
p1 <- ppc_error_scatter_avg(y2, yrep2)
p2 <- ppc_error_scatter(y2, yrep2)
d1 <- p1$data
d2 <- p2$data
# really only a few columns are _exactly_ the same
cols <- c("y_id", "y_obs", "value")
expect_equal(d1[, cols], d2[, cols])
})
test_that("ppc_error_scatter_avg_vs_x returns ggplot2 object", {
skip_if_not_installed("rstantools")
# expect warning
expect_warning(expect_gg(ppc_error_scatter_avg_vs_x(y, yrep, x = rnorm(length(y)))),
"'ppc_error_scatter_avg_vs_x' is deprecated.")
expect_warning(expect_gg(ppc_error_scatter_avg_vs_x(y, yrep[1:5, ], x = rnorm(length(y)))),
"'ppc_error_scatter_avg_vs_x' is deprecated.")
})
test_that("ppc_error_binned returns ggplot object", {
skip_if_not_installed("rstantools")
load(test_path("data-for-binomial.rda"))
expect_gg(ppc_error_binned(y, Ey))
expect_gg(ppc_error_binned(y[1:5], Ey[, 1:5]))
expect_gg(ppc_error_binned(rep(y, 2), cbind(Ey, Ey)))
expect_gg(ppc_error_binned(y, Ey, x = x))
expect_gg(ppc_error_binned(rep(y, 2), cbind(Ey, Ey), x = rep(x, 2)))
})
test_that("bin_errors works for edge cases", {
ans <-
data.frame(
ey_bar = c(1, NaN),
err_bar = c(0, NaN),
se2 = c(0, NaN),
bin = c(1, 2)
)
val <- bin_errors(rep(1, 10), rep(0, 10), bins = 1)
expect_equal(ans, val)
})
# Visual tests -----------------------------------------------------------------
test_that("ppc_error_hist renders correctly", {
testthat::skip_on_cran()
testthat::skip_if_not_installed("vdiffr")
skip_on_r_oldrel()
p_base <- ppc_error_hist(vdiff_y, vdiff_yrep[1:3, ])
vdiffr::expect_doppelganger("ppc_error_hist (default)", p_base)
})
test_that("ppc_error_hist_grouped renders correctly", {
testthat::skip_on_cran()
testthat::skip_if_not_installed("vdiffr")
skip_on_r_oldrel()
p_base <- ppc_error_hist_grouped(vdiff_y, vdiff_yrep[1:3, ], vdiff_group)
vdiffr::expect_doppelganger("ppc_error_hist_grouped (default)", p_base)
})
test_that("ppc_error_scatter renders correctly", {
testthat::skip_on_cran()
testthat::skip_if_not_installed("vdiffr")
skip_on_r_oldrel()
p_base <- ppc_error_scatter(vdiff_y, vdiff_yrep[1:3, ])
vdiffr::expect_doppelganger("ppc_error_scatter (default)", p_base)
})
test_that("ppc_error_scatter_avg renders correctly", {
testthat::skip_on_cran()
testthat::skip_if_not_installed("vdiffr")
skip_on_r_oldrel()
p_base <- ppc_error_scatter_avg(vdiff_y, vdiff_yrep)
vdiffr::expect_doppelganger("ppc_error_scatter_avg (default)", p_base)
p_base_x <- ppc_error_scatter_avg(vdiff_y, vdiff_yrep, x = seq_along(vdiff_y))
vdiffr::expect_doppelganger("ppc_error_scatter_avg (with x)", p_base_x)
})
test_that("ppc_error_scatter_avg_grouped renders correctly", {
testthat::skip_on_cran()
testthat::skip_if_not_installed("vdiffr")
skip_on_r_oldrel()
p_base <- ppc_error_scatter_avg_grouped(vdiff_y, vdiff_yrep, vdiff_group)
vdiffr::expect_doppelganger("ppc_error_scatter_avg_grouped (default)", p_base)
})
test_that("ppc_error_scatter_avg_vs_x renders correctly", {
testthat::skip_on_cran()
testthat::skip_if_not_installed("vdiffr")
skip_on_r_oldrel()
# expect warning
expect_warning(
p_base <- ppc_error_scatter_avg_vs_x(vdiff_y, vdiff_yrep, x = seq_along(vdiff_y)),
"'ppc_error_scatter_avg_vs_x' is deprecated."
)
vdiffr::expect_doppelganger("ppc_error_scatter_avg_vs_x (default)", p_base)
})
test_that("ppc_error_binned renders correctly", {
testthat::skip_on_cran()
testthat::skip_if_not_installed("vdiffr")
skip_on_r_oldrel()
rbeta2 <- function(n, mu, phi) {
a <- mu * phi
b <- (1 - mu) * phi
rbeta(n, a, b)
}
set.seed(100)
y <- rbeta(50, shape1 = 1, shape2 = 10)
four_draws <- structure(
c(-2.118, -2.061, -2.069, -2.011, 7.604, 9.720, 9.7186, 10.1888),
.Dim = c(4L, 2L),
.Dimnames = list(
iterations = NULL,
parameters = c("(Intercept)", "(phi)")
)
)
y_rep <- t(apply(four_draws, 1, function(x) rbeta2(50, plogis(x[1]), x[2])))
p_base <- ppc_error_binned(y, y_rep)
vdiffr::expect_doppelganger("ppc_error_binned (default)", p_base)
x <- rnorm(length(y), mean = 5)
p_base_x <- ppc_error_binned(y, y_rep, x = x)
vdiffr::expect_doppelganger("ppc_error_binned (with x)", p_base_x)
})
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