# Tests for [add_]epred_rvars # # Author: mjskay ############################################################################### suppressWarnings(suppressMessages({ library(dplyr) library(tidyr) library(magrittr) library(posterior) })) # data mtcars_tbl = mtcars %>% set_rownames(seq_len(nrow(.))) %>% as_tibble() # for reliable testing, need to use only a single core (otherwise random # numbers do not seem to always be reproducible on brms) options(mc.cores = 1) test_that("[add_]epred_rvars works on a simple rstanarm model", { skip_if_not_installed("rstanarm") m_hp_wt = readRDS(test_path("../models/models.rstanarm.m_hp_wt.rds")) ref = mtcars_tbl %>% mutate(.epred = rvar(rstantools::posterior_epred(m_hp_wt, newdata = mtcars_tbl))) expect_equal(epred_rvars(m_hp_wt, mtcars_tbl), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_wt), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_wt, value = "foo"), rename(ref, foo = .epred)) #epred_rvars.default should work fine here expect_equal(epred_rvars.default(m_hp_wt, mtcars_tbl), ref) #subsetting to test the `ndraws` argument set.seed(1234) draw_subset = sample.int(ndraws(ref$.epred), 10) filtered_ref = ref draws_of(filtered_ref$.epred) = draws_of(filtered_ref$.epred)[draw_subset,] dimnames(draws_of(filtered_ref$.epred))[[1]] = 1:10 expect_equal(epred_rvars(m_hp_wt, mtcars_tbl, ndraws = 10, seed = 1234), filtered_ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_wt, ndraws = 10, seed = 1234), filtered_ref) }) test_that("[add_]epred_rvars works on an rstanarm model with grouped newdata", { skip_if_not_installed("rstanarm") m_hp_wt = readRDS(test_path("../models/models.rstanarm.m_hp_wt.rds")) ref = mtcars_tbl %>% mutate(.epred = rvar(rstantools::posterior_epred(m_hp_wt, newdata = mtcars_tbl))) %>% group_by(hp) expect_equal(epred_rvars(m_hp_wt, group_by(mtcars_tbl, hp)), ref) expect_equal(add_epred_rvars(group_by(mtcars_tbl, hp), m_hp_wt), ref) }) test_that("[add_]epred_rvars works on brms models without dpar", { skip_if_not_installed("brms") m_hp = readRDS(test_path("../models/models.brms.m_hp.rds")) ref = mtcars_tbl %>% mutate(.epred = rvar(rstantools::posterior_epred(m_hp, newdata = mtcars_tbl))) expect_equal(epred_rvars(m_hp, mtcars_tbl), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp, dpar = FALSE), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp, dpar = FALSE, value = "foo"), rename(ref, foo = .epred)) #epred_rvars.default should work fine here expect_equal(epred_rvars.default(m_hp, mtcars_tbl), ref) #subsetting to test the `ndraws` argument set.seed(1234) filtered_ref = mtcars_tbl %>% mutate(.epred = rvar(rstantools::posterior_epred(m_hp, newdata = mtcars_tbl, ndraws = 10))) expect_equal(add_epred_rvars(mtcars_tbl, m_hp, ndraws = 10, seed = 1234), filtered_ref) }) test_that("[add_]epred_rvars works on brms models with dpar", { skip_if_not_installed("brms") m_hp_sigma = readRDS(test_path("../models/models.brms.m_hp_sigma.rds")) ref = mtcars_tbl %>% mutate( .epred = rvar(rstantools::posterior_epred(m_hp_sigma, newdata = mtcars_tbl)), mu = rvar(rstantools::posterior_epred(m_hp_sigma, newdata = mtcars_tbl, dpar = "mu")), sigma = rvar(rstantools::posterior_epred(m_hp_sigma, newdata = mtcars_tbl, dpar = "sigma")) ) expect_equal(epred_rvars(m_hp_sigma, mtcars_tbl, dpar = TRUE), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_sigma, dpar = TRUE), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_sigma, dpar = "sigma"), select(ref, -mu)) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_sigma, dpar = "mu"), select(ref, -sigma)) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_sigma, dpar = FALSE), select(ref, -sigma, -mu)) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_sigma, dpar = NULL), select(ref, -sigma, -mu)) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_sigma, dpar = list("mu", "sigma", s1 = "sigma")), mutate(ref, s1 = sigma)) #subsetting to test the `ndraws` argument filtered_ref = mtcars_tbl set.seed(1234) filtered_ref$.epred = rvar(rstantools::posterior_epred(m_hp_sigma, newdata = mtcars_tbl, ndraws = 10)) set.seed(1234) filtered_ref$mu = rvar(rstantools::posterior_epred(m_hp_sigma, newdata = mtcars_tbl, dpar = "mu", ndraws = 10)) set.seed(1234) filtered_ref$sigma = rvar(rstantools::posterior_epred(m_hp_sigma, newdata = mtcars_tbl, dpar = "sigma", ndraws = 10)) expect_equal(add_epred_rvars(mtcars_tbl, m_hp_sigma, ndraws = 10, seed = 1234, dpar = TRUE), filtered_ref) }) test_that("[add_]epred_rvars works on simple brms models with nlpars", { skip_if_not_installed("brms") m_nlpar = readRDS(test_path("../models/models.brms.m_nlpar.rds")) df_nlpar = as_tibble(m_nlpar$data) ref = df_nlpar %>% mutate(.epred = rvar(rstantools::posterior_epred(m_nlpar, newdata = df_nlpar))) expect_equal(epred_rvars(m_nlpar, df_nlpar), ref) expect_equal(add_epred_rvars(df_nlpar, m_nlpar), ref) expect_equal(add_epred_rvars(df_nlpar, m_nlpar, dpar = FALSE), ref) }) test_that("[add_]epred_rvars works on simple brms models with multiple dpars", { skip_if_not_installed("brms") m_dpars = readRDS(test_path("../models/models.brms.m_dpars.rds")) df_dpars = as_tibble(m_dpars$data) ref = df_dpars %>% mutate( .epred = rvar(rstantools::posterior_epred(m_dpars, newdata = df_dpars)), mu1 = rvar(rstantools::posterior_epred(m_dpars, newdata = df_dpars, dpar = "mu1")), mu2 = rvar(rstantools::posterior_epred(m_dpars, newdata = df_dpars, dpar = "mu2")) ) expect_equal(epred_rvars(m_dpars, df_dpars, dpar = TRUE), ref) expect_equal(add_epred_rvars(df_dpars, m_dpars, dpar = list("mu1", "mu2")), ref) expect_equal(add_epred_rvars(df_dpars, m_dpars, dpar = FALSE), select(ref, -mu1, -mu2)) }) test_that("[add_]epred_rvars works on brms models with ordinal outcomes (response scale)", { skip_if_not_installed("brms") m_cyl_mpg = readRDS(test_path("../models/models.brms.m_cyl_mpg.rds")) ref = mtcars_tbl %>% mutate(.epred = rvar(rstantools::posterior_epred(m_cyl_mpg, newdata = mtcars_tbl))) expect_equal(epred_rvars(m_cyl_mpg, mtcars_tbl), ref) expect_equal(add_epred_rvars(mtcars_tbl, m_cyl_mpg), ref) # column transformation column_ref = ref %>% mutate(.row = 1:n()) %>% group_by(across(-.epred)) %>% reframe(cyl_pred = colnames(.epred), .epred = t(.epred)) %>% arrange(cyl_pred, .row) dim(column_ref$.epred) = length(column_ref$.epred) expect_equal(add_epred_rvars(mtcars_tbl, m_cyl_mpg, columns_to = "cyl_pred"), column_ref) }) test_that("[add_]epred_rvars works on brms models with dirichlet outcomes (response scale)", { skip_if_not_installed("brms") skip_if_not(getRversion() >= "4") m_dirich = readRDS(test_path("../models/models.brms.m_dirich.rds")) grid = tibble(x = c("A", "B")) ref = grid %>% mutate(.epred = rvar(rstantools::posterior_epred(m_dirich, newdata = grid))) expect_equal(epred_rvars(m_dirich, grid), ref) }) test_that("[add_]epred_rvars allows extraction of dpar on brms models with categorical outcomes (response scale)", { skip_if_not_installed("brms") m_cyl_mpg = readRDS(test_path("../models/models.brms.m_cyl_mpg.rds")) ref = mtcars_tbl %>% mutate( .epred = rvar(rstantools::posterior_epred(m_cyl_mpg, newdata = mtcars_tbl)), mu = rvar(rstantools::posterior_epred(m_cyl_mpg, newdata = mtcars_tbl, dpar = "mu")), disc = rvar(rstantools::posterior_epred(m_cyl_mpg, newdata = mtcars_tbl, dpar = "disc")) ) expect_equal(epred_rvars(m_cyl_mpg, mtcars_tbl, dpar = TRUE), ref) ref$disc = NULL expect_equal(add_epred_rvars(mtcars_tbl, m_cyl_mpg, dpar = "mu"), ref) }) # non-generic argument tests ---------------------------------------------- test_that("[add_]epred_rvars throws an error when re.form is called instead of re_formula in rstanarm", { skip_if_not_installed("rstanarm") m_hp_wt = readRDS(test_path("../models/models.rstanarm.m_hp_wt.rds")) expect_error( m_hp_wt %>% epred_rvars(mtcars_tbl, re.form = NULL), "`re.form.*.`re_formula`.*.See the documentation for additional details." ) expect_error( mtcars_tbl %>% add_epred_rvars(m_hp_wt, re.form = NULL), "`re.form.*.`re_formula`.*.See the documentation for additional details." ) }) # unknown model type tests ------------------------------------------------ test_that("rethinking model usage refers user to tidybayes.rethinking", { m = structure(list(), class = "map2stan") expect_error(epred_rvars(m), "tidybayes.rethinking") })