dwww Home | Show directory contents | Find package

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

if (.runThisTest && requiet("glmmTMB") && requiet("geoR") && requiet("TMB")) {
  data(ca20)
  d <- data.frame(
    x = ca20$coords[, 1],
    y = ca20$coords[, 2],
    calcium = ca20$data,
    elevation = ca20$covariate[, 1],
    region = factor(ca20$covariate[, 2]),
    pos = numFactor(scale(ca20$coords[, 1]), scale(ca20$coords[, 2])),
    ID = factor(rep(1, length(ca20$coords[, 1])))
  )
  dat <<- d

  m1 <- download_model("glmmTMB_spatial_1")

  test_that("find_weights", {
    expect_null(find_weights(m1))
  })

  test_that("model_info", {
    expect_true(model_info(m1)$is_linear)
  })

  test_that("clean_names", {
    expect_identical(clean_names(m1), c("calcium", "elevation", "region", "pos", "ID"))
  })

  test_that("find_predictors", {
    expect_identical(
      find_predictors(m1, effects = "all"),
      list(conditional = c("elevation", "region"), random = c("pos", "ID"))
    )
    expect_identical(
      find_predictors(m1, effects = "all", flatten = TRUE),
      c("elevation", "region", "pos", "ID")
    )

    expect_identical(
      find_predictors(m1, effects = "random"),
      list(random = "ID")
    )
    expect_identical(find_predictors(m1, effects = "random", flatten = TRUE), "ID")
  })

  test_that("find_response", {
    expect_identical(find_response(m1), "calcium")
  })

  test_that("link_inverse", {
    expect_identical(link_inverse(m1)(0.2), 0.2)
  })

  test_that("get_data", {
    expect_identical(
      colnames(get_data(m1)),
      c("calcium", "elevation", "region", "pos", "ID")
    )
    expect_identical(
      colnames(get_data(m1, effects = "all")),
      c("calcium", "elevation", "region", "pos", "ID")
    )
  })

  test_that("find_predictors", {
    expect_identical(
      find_predictors(m1, effects = "fixed", component = "conditional"),
      list(conditional = c("elevation", "region"))
    )
    expect_identical(
      find_predictors(m1),
      list(conditional = c("elevation", "region"))
    )
    expect_identical(
      find_predictors(m1, effects = "all"),
      list(
        conditional = c("elevation", "region"),
        random = c("pos", "ID")
      )
    )
  })

  test_that("find_formula", {
    expect_length(find_formula(m1), 2)
    expect_equal(
      find_formula(m1),
      list(
        conditional = as.formula("calcium ~ elevation + region"),
        random = as.formula("~pos + 0 | ID")
      ),
      ignore_attr = TRUE
    )
  })

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

  test_that("find_terms", {
    expect_identical(
      find_terms(m1),
      list(
        response = "calcium",
        conditional = c("elevation", "region"),
        random = c("pos", "ID")
      )
    )
  })

  test_that("find_variables", {
    expect_identical(
      find_variables(m1),
      list(
        response = "calcium",
        conditional = c("elevation", "region"),
        random = c("pos", "ID")
      )
    )
  })


  test_that("get_predictors", {
    expect_identical(
      colnames(get_predictors(m1)),
      c("elevation", "region")
    )
  })

  test_that("get_random", {
    expect_identical(colnames(get_random(m1)), "ID")
  })

  test_that("get_data", {
    expect_identical(
      colnames(get_data(m1)),
      c("calcium", "elevation", "region", "pos", "ID")
    )
  })


  test_that("get_paramaters", {
    expect_identical(nrow(get_parameters(m1)), 5L)
    expect_identical(
      get_parameters(m1)$Parameter,
      c("(Intercept)", "elevation", "region2", "region3", "(Intercept)")
    )
  })

  test_that("find_random_slopes", {
    skip_on_cran()
    skip_on_travis()

    expect_identical(
      find_random_slopes(m1),
      list(random = "pos")
    )
  })
}

Generated by dwww version 1.15 on Fri Jun 21 23:13:56 CEST 2024.