## ---- test-cTMed-boot-med-std lapply( X = 1, FUN = function(i, text, tol) { message(text) testthat::test_that( paste(text, "BootMedStd"), { testthat::skip_on_cran() total <- 0.07477656 direct <- -0.30032315 indirect <- 0.37509972 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") sigma <- matrix( data = c( 0.24455556, 0.02201587, -0.05004762, 0.02201587, 0.07067800, 0.01539456, -0.05004762, 0.01539456, 0.07553061 ), nrow = 3 ) vcov_theta <- matrix( data = c( 0.00843, 0.00040, -0.00151, -0.00600, -0.00033, 0.00110, 0.00324, 0.00020, -0.00061, -0.00115, 0.00011, 0.00015, 0.00001, -0.00002, -0.00001, 0.00040, 0.00374, 0.00016, -0.00022, -0.00273, -0.00016, 0.00009, 0.00150, 0.00012, -0.00010, -0.00026, 0.00002, 0.00012, 0.00004, -0.00001, -0.00151, 0.00016, 0.00389, 0.00103, -0.00007, -0.00283, -0.00050, 0.00000, 0.00156, 0.00021, -0.00005, -0.00031, 0.00001, 0.00007, 0.00006, -0.00600, -0.00022, 0.00103, 0.00644, 0.00031, -0.00119, -0.00374, -0.00021, 0.00070, 0.00064, -0.00015, -0.00005, 0.00000, 0.00003, -0.00001, -0.00033, -0.00273, -0.00007, 0.00031, 0.00287, 0.00013, -0.00014, -0.00170, -0.00012, 0.00006, 0.00014, -0.00001, -0.00015, 0.00000, 0.00001, 0.00110, -0.00016, -0.00283, -0.00119, 0.00013, 0.00297, 0.00063, -0.00004, -0.00177, -0.00013, 0.00005, 0.00017, -0.00002, -0.00008, 0.00001, 0.00324, 0.00009, -0.00050, -0.00374, -0.00014, 0.00063, 0.00495, 0.00024, -0.00093, -0.00020, 0.00006, -0.00010, 0.00000, -0.00001, 0.00004, 0.00020, 0.00150, 0.00000, -0.00021, -0.00170, -0.00004, 0.00024, 0.00214, 0.00012, -0.00002, -0.00004, 0.00000, 0.00006, -0.00005, -0.00001, -0.00061, 0.00012, 0.00156, 0.00070, -0.00012, -0.00177, -0.00093, 0.00012, 0.00223, 0.00004, -0.00002, -0.00003, 0.00001, 0.00003, -0.00013, -0.00115, -0.00010, 0.00021, 0.00064, 0.00006, -0.00013, -0.00020, -0.00002, 0.00004, 0.00057, 0.00001, -0.00009, 0.00000, 0.00000, 0.00001, 0.00011, -0.00026, -0.00005, -0.00015, 0.00014, 0.00005, 0.00006, -0.00004, -0.00002, 0.00001, 0.00012, 0.00001, 0.00000, -0.00002, 0.00000, 0.00015, 0.00002, -0.00031, -0.00005, -0.00001, 0.00017, -0.00010, 0.00000, -0.00003, -0.00009, 0.00001, 0.00014, 0.00000, 0.00000, -0.00005, 0.00001, 0.00012, 0.00001, 0.00000, -0.00015, -0.00002, 0.00000, 0.00006, 0.00001, 0.00000, 0.00000, 0.00000, 0.00010, 0.00001, 0.00000, -0.00002, 0.00004, 0.00007, 0.00003, 0.00000, -0.00008, -0.00001, -0.00005, 0.00003, 0.00000, -0.00002, 0.00000, 0.00001, 0.00005, 0.00001, -0.00001, -0.00001, 0.00006, -0.00001, 0.00001, 0.00001, 0.00004, -0.00001, -0.00013, 0.00001, 0.00000, -0.00005, 0.00000, 0.00001, 0.00012 ), nrow = 15 ) delta_t <- 2 R <- 1000 mc <- MCPhiSigma( phi = phi, sigma = sigma, vcov_theta = vcov_theta, R = R, seed = 42 )$output mc_phi <- lapply( X = mc, FUN = function(i) { return( i[[1]] ) } ) mc_sigma <- lapply( X = mc, FUN = function(i) { return( i[[2]] ) } ) boot <- BootMedStd( phi = mc_phi, sigma = mc_sigma, phi_hat = phi, sigma_hat = sigma, delta_t = delta_t, from = "x", to = "y", med = "m" ) testthat::expect_true( all( ( answer - summary(boot)$est ) <= tol ) ) } ) testthat::test_that( paste(text, "plot error"), { testthat::skip_on_cran() total <- 0.07477656 direct <- -0.30032315 indirect <- 0.37509972 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") sigma <- matrix( data = c( 0.24455556, 0.02201587, -0.05004762, 0.02201587, 0.07067800, 0.01539456, -0.05004762, 0.01539456, 0.07553061 ), nrow = 3 ) vcov_theta <- matrix( data = c( 0.00843, 0.00040, -0.00151, -0.00600, -0.00033, 0.00110, 0.00324, 0.00020, -0.00061, -0.00115, 0.00011, 0.00015, 0.00001, -0.00002, -0.00001, 0.00040, 0.00374, 0.00016, -0.00022, -0.00273, -0.00016, 0.00009, 0.00150, 0.00012, -0.00010, -0.00026, 0.00002, 0.00012, 0.00004, -0.00001, -0.00151, 0.00016, 0.00389, 0.00103, -0.00007, -0.00283, -0.00050, 0.00000, 0.00156, 0.00021, -0.00005, -0.00031, 0.00001, 0.00007, 0.00006, -0.00600, -0.00022, 0.00103, 0.00644, 0.00031, -0.00119, -0.00374, -0.00021, 0.00070, 0.00064, -0.00015, -0.00005, 0.00000, 0.00003, -0.00001, -0.00033, -0.00273, -0.00007, 0.00031, 0.00287, 0.00013, -0.00014, -0.00170, -0.00012, 0.00006, 0.00014, -0.00001, -0.00015, 0.00000, 0.00001, 0.00110, -0.00016, -0.00283, -0.00119, 0.00013, 0.00297, 0.00063, -0.00004, -0.00177, -0.00013, 0.00005, 0.00017, -0.00002, -0.00008, 0.00001, 0.00324, 0.00009, -0.00050, -0.00374, -0.00014, 0.00063, 0.00495, 0.00024, -0.00093, -0.00020, 0.00006, -0.00010, 0.00000, -0.00001, 0.00004, 0.00020, 0.00150, 0.00000, -0.00021, -0.00170, -0.00004, 0.00024, 0.00214, 0.00012, -0.00002, -0.00004, 0.00000, 0.00006, -0.00005, -0.00001, -0.00061, 0.00012, 0.00156, 0.00070, -0.00012, -0.00177, -0.00093, 0.00012, 0.00223, 0.00004, -0.00002, -0.00003, 0.00001, 0.00003, -0.00013, -0.00115, -0.00010, 0.00021, 0.00064, 0.00006, -0.00013, -0.00020, -0.00002, 0.00004, 0.00057, 0.00001, -0.00009, 0.00000, 0.00000, 0.00001, 0.00011, -0.00026, -0.00005, -0.00015, 0.00014, 0.00005, 0.00006, -0.00004, -0.00002, 0.00001, 0.00012, 0.00001, 0.00000, -0.00002, 0.00000, 0.00015, 0.00002, -0.00031, -0.00005, -0.00001, 0.00017, -0.00010, 0.00000, -0.00003, -0.00009, 0.00001, 0.00014, 0.00000, 0.00000, -0.00005, 0.00001, 0.00012, 0.00001, 0.00000, -0.00015, -0.00002, 0.00000, 0.00006, 0.00001, 0.00000, 0.00000, 0.00000, 0.00010, 0.00001, 0.00000, -0.00002, 0.00004, 0.00007, 0.00003, 0.00000, -0.00008, -0.00001, -0.00005, 0.00003, 0.00000, -0.00002, 0.00000, 0.00001, 0.00005, 0.00001, -0.00001, -0.00001, 0.00006, -0.00001, 0.00001, 0.00001, 0.00004, -0.00001, -0.00013, 0.00001, 0.00000, -0.00005, 0.00000, 0.00001, 0.00012 ), nrow = 15 ) delta_t <- 2 R <- 1000 mc <- MCPhiSigma( phi = phi, sigma = sigma, vcov_theta = vcov_theta, R = R, seed = 42 )$output mc_phi <- lapply( X = mc, FUN = function(i) { return( i[[1]] ) } ) mc_sigma <- lapply( X = mc, FUN = function(i) { return( i[[2]] ) } ) boot <- BootMedStd( phi = mc_phi, sigma = mc_sigma, phi_hat = phi, sigma_hat = sigma, delta_t = 1:5, from = "x", to = "y", med = "m" ) print(boot) summary(boot) confint(boot) plot(boot) print(boot, type = "bc") summary(boot, type = "bc") confint(boot, type = "bc") plot(boot, type = "bc") boot <- BootMedStd( phi = mc_phi, sigma = mc_sigma, phi_hat = phi, sigma_hat = sigma, delta_t = 1, from = "x", to = "y", med = "m" ) print(boot) summary(boot) confint(boot, level = 0.95) print(boot, type = "bc") summary(boot, type = "bc") confint(boot, type = "bc", level = 0.95) testthat::expect_error( plot(boot) ) } ) }, text = "test-cTMed-boot-med-std", tol = 0.01 )