From 23608e623981f38988e96eb538021274c0d074ea Mon Sep 17 00:00:00 2001
From: Indrajeet Patil <patilindrajeet.science@gmail.com>
Date: Sat, 23 Mar 2024 21:43:30 +0100
Subject: [PATCH] fix remaining examples

---
 R/data_plot.R                            | 2 +-
 R/plot.check_heteroscedasticity.R        | 2 +-
 R/plot.compare_parameters.R              | 2 +-
 R/plot.estimate_contrasts.R              | 2 ++
 R/plot.n_factors.R                       | 2 +-
 R/plot.parameters_brms_meta.R            | 2 +-
 man/add_plot_attributes.Rd               | 2 +-
 man/plot.see_check_heteroscedasticity.Rd | 2 +-
 man/plot.see_compare_parameters.Rd       | 2 +-
 man/plot.see_estimate_contrasts.Rd       | 2 ++
 man/plot.see_n_factors.Rd                | 2 +-
 man/plot.see_parameters_brms_meta.Rd     | 2 +-
 12 files changed, 14 insertions(+), 10 deletions(-)

diff --git a/R/data_plot.R b/R/data_plot.R
index 61c3e56fb..ac0f37786 100644
--- a/R/data_plot.R
+++ b/R/data_plot.R
@@ -106,7 +106,7 @@ data_plot <- function(x, ...) {
 #'   chains = 2, iter = 200, refresh = 0
 #' ))
 #'
-#' result <- hdi(model, ci = c(0.5, 0.75, 0.9, 0.95))
+#' result <- bayestestR::hdi(model, ci = c(0.5, 0.75, 0.9, 0.95))
 #' data <- data_plot(result, data = model)
 #'
 #' p <- ggplot(
diff --git a/R/plot.check_heteroscedasticity.R b/R/plot.check_heteroscedasticity.R
index 9865e0784..3a28fa9bf 100644
--- a/R/plot.check_heteroscedasticity.R
+++ b/R/plot.check_heteroscedasticity.R
@@ -11,7 +11,7 @@
 #'
 #' @examples
 #' m <- lm(mpg ~ wt + cyl + gear + disp, data = mtcars)
-#' result <- check_heteroscedasticity(m)
+#' result <- performance::check_heteroscedasticity(m)
 #' result
 #' plot(result, data = m) # data required for pkgdown
 #' @export
diff --git a/R/plot.compare_parameters.R b/R/plot.compare_parameters.R
index 3f9a7159e..fdc9205e6 100644
--- a/R/plot.compare_parameters.R
+++ b/R/plot.compare_parameters.R
@@ -19,7 +19,7 @@
 #' lm1 <- lm(Sepal.Length ~ Species, data = iris)
 #' lm2 <- lm(Sepal.Length ~ Species + Petal.Length, data = iris)
 #' lm3 <- lm(Sepal.Length ~ Species * Petal.Length, data = iris)
-#' result <- compare_parameters(lm1, lm2, lm3)
+#' result <- parameters::compare_parameters(lm1, lm2, lm3)
 #' plot(result)
 #' @export
 plot.see_compare_parameters <- function(x,
diff --git a/R/plot.estimate_contrasts.R b/R/plot.estimate_contrasts.R
index 9670f088b..fdde59c62 100644
--- a/R/plot.estimate_contrasts.R
+++ b/R/plot.estimate_contrasts.R
@@ -71,6 +71,8 @@ data_plot.estimate_contrasts <- function(x, data = NULL, ...) {
 #'
 #' @examplesIf require("emmeans")
 #' \donttest{
+#' library(modelbased)
+#'
 #' model <- lm(Sepal.Width ~ Species, data = iris)
 #' contrasts <- estimate_contrasts(model)
 #' means <- estimate_means(model)
diff --git a/R/plot.n_factors.R b/R/plot.n_factors.R
index 0aea3b013..31a265d05 100644
--- a/R/plot.n_factors.R
+++ b/R/plot.n_factors.R
@@ -108,7 +108,7 @@ data_plot.n_clusters <- data_plot.n_factors
 #'
 #' @examplesIf require("nFactors")
 #' data(mtcars)
-#' result <- n_factors(mtcars, type = "PCA")
+#' result <- parameters::n_factors(mtcars, type = "PCA")
 #' result
 #'
 #' plot(result) # type = "bar" by default
diff --git a/R/plot.parameters_brms_meta.R b/R/plot.parameters_brms_meta.R
index 34504d80e..00d38de4f 100644
--- a/R/plot.parameters_brms_meta.R
+++ b/R/plot.parameters_brms_meta.R
@@ -130,7 +130,7 @@ data_plot.parameters_brms_meta <- function(x, data = NULL, normalize_height = TR
 #'   prior(cauchy(0, 0.5), class = sd)
 #' )
 #' model <- suppressWarnings(
-#'   brm(yi | se(vi) ~ 1 + (1 | author), data = dat)
+#'   brm(yi | se(vi) ~ 1 + (1 | author), data = dat, refresh = 0, silent = 2)
 #' )
 #'
 #' # result
diff --git a/man/add_plot_attributes.Rd b/man/add_plot_attributes.Rd
index 148c7ee85..77b4975cf 100644
--- a/man/add_plot_attributes.Rd
+++ b/man/add_plot_attributes.Rd
@@ -28,7 +28,7 @@ model <- suppressWarnings(stan_glm(
   chains = 2, iter = 200, refresh = 0
 ))
 
-result <- hdi(model, ci = c(0.5, 0.75, 0.9, 0.95))
+result <- bayestestR::hdi(model, ci = c(0.5, 0.75, 0.9, 0.95))
 data <- data_plot(result, data = model)
 
 p <- ggplot(
diff --git a/man/plot.see_check_heteroscedasticity.Rd b/man/plot.see_check_heteroscedasticity.Rd
index 2b7e600b0..2bef7ecaf 100644
--- a/man/plot.see_check_heteroscedasticity.Rd
+++ b/man/plot.see_check_heteroscedasticity.Rd
@@ -23,7 +23,7 @@ The \code{plot()} method for the
 }
 \examples{
 m <- lm(mpg ~ wt + cyl + gear + disp, data = mtcars)
-result <- check_heteroscedasticity(m)
+result <- performance::check_heteroscedasticity(m)
 result
 plot(result, data = m) # data required for pkgdown
 }
diff --git a/man/plot.see_compare_parameters.Rd b/man/plot.see_compare_parameters.Rd
index 900e68406..c067323d5 100644
--- a/man/plot.see_compare_parameters.Rd
+++ b/man/plot.see_compare_parameters.Rd
@@ -63,6 +63,6 @@ data(iris)
 lm1 <- lm(Sepal.Length ~ Species, data = iris)
 lm2 <- lm(Sepal.Length ~ Species + Petal.Length, data = iris)
 lm3 <- lm(Sepal.Length ~ Species * Petal.Length, data = iris)
-result <- compare_parameters(lm1, lm2, lm3)
+result <- parameters::compare_parameters(lm1, lm2, lm3)
 plot(result)
 }
diff --git a/man/plot.see_estimate_contrasts.Rd b/man/plot.see_estimate_contrasts.Rd
index 05f9de8d7..0b3f295e7 100644
--- a/man/plot.see_estimate_contrasts.Rd
+++ b/man/plot.see_estimate_contrasts.Rd
@@ -24,6 +24,8 @@ function.
 \examples{
 \dontshow{if (require("emmeans")) (if (getRversion() >= "3.4") withAutoprint else force)(\{ # examplesIf}
 \donttest{
+library(modelbased)
+
 model <- lm(Sepal.Width ~ Species, data = iris)
 contrasts <- estimate_contrasts(model)
 means <- estimate_means(model)
diff --git a/man/plot.see_n_factors.Rd b/man/plot.see_n_factors.Rd
index 37a8a6c8d..c3ef4ac29 100644
--- a/man/plot.see_n_factors.Rd
+++ b/man/plot.see_n_factors.Rd
@@ -33,7 +33,7 @@ The \code{plot()} method for the \code{parameters::n_factors()} and \code{parame
 \examples{
 \dontshow{if (require("nFactors")) (if (getRversion() >= "3.4") withAutoprint else force)(\{ # examplesIf}
 data(mtcars)
-result <- n_factors(mtcars, type = "PCA")
+result <- parameters::n_factors(mtcars, type = "PCA")
 result
 
 plot(result) # type = "bar" by default
diff --git a/man/plot.see_parameters_brms_meta.Rd b/man/plot.see_parameters_brms_meta.Rd
index 502f8c255..8260aa9f2 100644
--- a/man/plot.see_parameters_brms_meta.Rd
+++ b/man/plot.see_parameters_brms_meta.Rd
@@ -85,7 +85,7 @@ priors <- c(
   prior(cauchy(0, 0.5), class = sd)
 )
 model <- suppressWarnings(
-  brm(yi | se(vi) ~ 1 + (1 | author), data = dat)
+  brm(yi | se(vi) ~ 1 + (1 | author), data = dat, refresh = 0, silent = 2)
 )
 
 # result