revdep/checks.noindex/insight/old/insight.Rcheck/tests/testthat/test-negbin.R

In gbm-developers/gbm: Generalized Boosted Regression Models

.runThisTest <- Sys.getenv("RunAllinsightTests") == "yes"

if (.runThisTest && Sys.getenv("USER") != "travis") {
  if (require("testthat") && require("insight") && require("aod")) {
    context("insight, negbin")

    data(dja)
    m1 <-
      aod::negbin(y ~ group + offset(log(trisk)),
        random = ~village,
        data = dja
      )

    test_that("model_info", {
      expect_true(model_info(m1)$is_negbin)
      expect_true(model_info(m1)$is_mixed)
    })

    test_that("find_predictors", {
      expect_identical(find_predictors(m1), list(conditional = c("group", "trisk")))
      expect_identical(find_predictors(m1, flatten = TRUE), c("group", "trisk"))
      expect_identical(
        find_predictors(m1, effects = "random"),
        list(random = "village")
      )
      expect_identical(
        find_predictors(m1, effects = "all"),
        list(
          conditional = c("group", "trisk"),
          random = "village"
        )
      )
    })

    test_that("find_random", {
      expect_identical(find_random(m1), list(random = "village"))
    })

    test_that("get_random", {
      expect_equal(get_random(m1), dja[, "village", drop = FALSE])
    })

    test_that("find_response", {
      expect_identical(find_response(m1), "y")
      expect_identical(find_response(m1, combine = FALSE), "y")
    })

    test_that("get_response", {
      expect_equal(get_response(m1), dja[, "y"])
    })

    test_that("get_predictors", {
      expect_equal(colnames(get_predictors(m1)), c("group", "trisk"))
    })

    test_that("link_inverse", {
      expect_equal(link_inverse(m1)(.2), exp(.2), tolerance = 1e-5)
    })

    test_that("link_function", {
      expect_equal(link_function(m1)(.2), log(.2), tolerance = 1e-5)
    })

    test_that("get_data", {
      expect_equal(nrow(get_data(m1)), 75)
      expect_equal(colnames(get_data(m1)), c("y", "group", "trisk", "village"))
    })

    test_that("find_formula", {
      expect_length(find_formula(m1), 2)
      expect_equal(
        find_formula(m1),
        list(
          conditional = as.formula("y ~ group + offset(log(trisk))"),
          random = as.formula("~village")
        )
      )
    })

    test_that("find_variables", {
      expect_equal(
        find_variables(m1),
        list(
          response = "y",
          conditional = c("group", "trisk"),
          random = "village"
        )
      )
      expect_equal(
        find_variables(m1, flatten = TRUE),
        c("y", "group", "trisk", "village")
      )
    })

    test_that("n_obs", {
      expect_equal(n_obs(m1), 75)
    })

    test_that("find_parameters", {
      expect_equal(
        find_parameters(m1),
        list(
          conditional = c("(Intercept)", "groupTREAT"),
          random = c(
            "phi.villageBAK",
            "phi.villageBAM",
            "phi.villageBAN",
            "phi.villageBIJ",
            "phi.villageBOU",
            "phi.villageBYD",
            "phi.villageDEM",
            "phi.villageDIA",
            "phi.villageHAM",
            "phi.villageLAM",
            "phi.villageLAY",
            "phi.villageMAF",
            "phi.villageMAH",
            "phi.villageMAK",
            "phi.villageMED",
            "phi.villageNAB",
            "phi.villageSAG",
            "phi.villageSAM",
            "phi.villageSOU"
          )
        )
      )
      expect_equal(nrow(get_parameters(m1)), 2)
      expect_equal(
        get_parameters(m1)$Parameter,
        c("(Intercept)", "groupTREAT")
      )
    })

    test_that("is_multivariate", {
      expect_false(is_multivariate(m1))
    })

    test_that("find_terms", {
      expect_equal(
        find_terms(m1),
        list(
          response = "y",
          conditional = c("group", "offset(log(trisk))"),
          random = "village"
        )
      )
    })

    test_that("find_algorithm", {
      expect_equal(find_algorithm(m1), list(algorithm = "ML"))
    })

    test_that("find_statistic", {
      expect_identical(find_statistic(m1), "z-statistic")
    })
  }
}