tests/testthat/test-cTMed-mc-med.R

In cTMed: Continuous-Time Mediation

## ---- test-cTMed-mc-med
lapply(
  X = 1,
  FUN = function(i,
                 text,
                 tol) {
    message(text)
    testthat::test_that(
      paste(text, "MCMed"),
      {
        testthat::skip_on_cran()
        total <- 0.0799008
        direct <- -0.3209035
        indirect <- 0.4008043
        answer <- c(
          total,
          direct,
          indirect
        )
        phi <- matrix(
          data = c(
            -0.357, 0.771, -0.450,
            0.0, -0.511, 0.729,
            0, 0, -0.693
          ),
          nrow = 3
        )
        colnames(phi) <- rownames(phi) <- c("x", "m", "y")
        vcov_phi_vec <- matrix(
          data = c(
            0.00843, 0.00040, -0.00151,
            -0.00600, -0.00033, 0.00110,
            0.00324, 0.00020, -0.00061,
            0.00040, 0.00374, 0.00016,
            -0.00022, -0.00273, -0.00016,
            0.00009, 0.00150, 0.00012,
            -0.00151, 0.00016, 0.00389,
            0.00103, -0.00007, -0.00283,
            -0.00050, 0.00000, 0.00156,
            -0.00600, -0.00022, 0.00103,
            0.00644, 0.00031, -0.00119,
            -0.00374, -0.00021, 0.00070,
            -0.00033, -0.00273, -0.00007,
            0.00031, 0.00287, 0.00013,
            -0.00014, -0.00170, -0.00012,
            0.00110, -0.00016, -0.00283,
            -0.00119, 0.00013, 0.00297,
            0.00063, -0.00004, -0.00177,
            0.00324, 0.00009, -0.00050,
            -0.00374, -0.00014, 0.00063,
            0.00495, 0.00024, -0.00093,
            0.00020, 0.00150, 0.00000,
            -0.00021, -0.00170, -0.00004,
            0.00024, 0.00214, 0.00012,
            -0.00061, 0.00012, 0.00156,
            0.00070, -0.00012, -0.00177,
            -0.00093, 0.00012, 0.00223
          ),
          nrow = 9
        )
        mc <- MCMed(
          phi = phi,
          vcov_phi_vec = vcov_phi_vec,
          delta_t = 2,
          from = "x",
          to = "y",
          med = "m",
          R = 1000,
          seed = 42
        )
        testthat::expect_true(
          all(
            (
              answer - summary(mc)$est
            ) <= tol
          )
        )
      }
    )
    testthat::test_that(
      paste(text, "plot error"),
      {
        testthat::skip_on_cran()
        total <- 0.0799008
        direct <- -0.3209035
        indirect <- 0.4008043
        answer <- c(
          total,
          direct,
          indirect
        )
        phi <- matrix(
          data = c(
            -0.357, 0.771, -0.450,
            0.0, -0.511, 0.729,
            0, 0, -0.693
          ),
          nrow = 3
        )
        colnames(phi) <- rownames(phi) <- c("x", "m", "y")
        vcov_phi_vec <- matrix(
          data = c(
            0.00843, 0.00040, -0.00151,
            -0.00600, -0.00033, 0.00110,
            0.00324, 0.00020, -0.00061,
            0.00040, 0.00374, 0.00016,
            -0.00022, -0.00273, -0.00016,
            0.00009, 0.00150, 0.00012,
            -0.00151, 0.00016, 0.00389,
            0.00103, -0.00007, -0.00283,
            -0.00050, 0.00000, 0.00156,
            -0.00600, -0.00022, 0.00103,
            0.00644, 0.00031, -0.00119,
            -0.00374, -0.00021, 0.00070,
            -0.00033, -0.00273, -0.00007,
            0.00031, 0.00287, 0.00013,
            -0.00014, -0.00170, -0.00012,
            0.00110, -0.00016, -0.00283,
            -0.00119, 0.00013, 0.00297,
            0.00063, -0.00004, -0.00177,
            0.00324, 0.00009, -0.00050,
            -0.00374, -0.00014, 0.00063,
            0.00495, 0.00024, -0.00093,
            0.00020, 0.00150, 0.00000,
            -0.00021, -0.00170, -0.00004,
            0.00024, 0.00214, 0.00012,
            -0.00061, 0.00012, 0.00156,
            0.00070, -0.00012, -0.00177,
            -0.00093, 0.00012, 0.00223
          ),
          nrow = 9
        )
        mc <- MCMed(
          phi = phi,
          vcov_phi_vec = vcov_phi_vec,
          delta_t = 1:5,
          from = "x",
          to = "y",
          med = "m",
          R = 1000,
          seed = NULL,
          test_phi = FALSE
        )
        print(mc)
        summary(mc)
        confint(mc, level = 0.95)
        plot(mc)
        mc <- MCMed(
          phi = phi,
          vcov_phi_vec = vcov_phi_vec,
          delta_t = 1,
          from = "x",
          to = "y",
          med = "m",
          R = 1000,
          seed = NULL,
          test_phi = FALSE
        )
        print(mc)
        summary(mc)
        confint(mc, level = 0.95)
        testthat::expect_error(
          plot(mc)
        )
      }
    )
  },
  text = "test-cTMed-mc-med",
  tol = 0.01
)