Merge branch 'main' into test_examples@main

insightsengineering · Dec 16, 2024 · 926d4d0 · 926d4d0
2 parents 5319f0c + 1599608
commit 926d4d0
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Showing 60 changed files with 284 additions and 290 deletions.
diff --git a/.github/workflows/check.yaml b/.github/workflows/check.yaml
@@ -42,6 +42,22 @@ jobs:
         checking top-level files .* NOTE
       unit-test-report-brand: >-
         https://raw.githubusercontent.com/insightsengineering/hex-stickers/main/thumbs/teal.png
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/roxy.shinylive
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/teal.slice
+        insightsengineering/tern
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
   r-cmd-non-cran:
     name: R CMD Check (non-CRAN) 🧬
     uses: insightsengineering/r.pkg.template/.github/workflows/build-check-install.yaml@main
@@ -64,6 +80,22 @@ jobs:
         checking Rd .usage sections .* NOTE
         checking for unstated dependencies in vignettes .* NOTE
         checking top-level files .* NOTE
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/roxy.shinylive
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/teal.slice
+        insightsengineering/tern
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
   coverage:
     name: Coverage 📔
     uses: insightsengineering/r.pkg.template/.github/workflows/test-coverage.yaml@main
@@ -72,6 +104,22 @@ jobs:
     with:
       additional-env-vars: |
         NOT_CRAN=true
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/roxy.shinylive
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/teal.slice
+        insightsengineering/tern
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
   linter:
     if: github.event_name != 'push'
     name: SuperLinter 🦸‍♀️
@@ -83,6 +131,22 @@ jobs:
       REPO_GITHUB_TOKEN: ${{ secrets.REPO_GITHUB_TOKEN }}
     with:
       auto-update: true
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/roxy.shinylive
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/teal.slice
+        insightsengineering/tern
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
   gitleaks:
     name: gitleaks 💧
     uses: insightsengineering/r.pkg.template/.github/workflows/gitleaks.yaml@main

diff --git a/.github/workflows/docs.yaml b/.github/workflows/docs.yaml
@@ -42,3 +42,19 @@ jobs:
     with:
       default-landing-page: latest-tag
       additional-unit-test-report-directories: unit-test-report-non-cran
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/roxy.shinylive
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/teal.slice
+        insightsengineering/tern
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
diff --git a/.github/workflows/release.yaml b/.github/workflows/release.yaml
@@ -16,12 +16,43 @@ jobs:
       REPO_GITHUB_TOKEN: ${{ secrets.REPO_GITHUB_TOKEN }}
     with:
       default-landing-page: latest-tag
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/tern
+        insightsengineering/nestcolor
+        insightsengineering/roxy.shinylive
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
   validation:
     name: R Package Validation report 📃
     needs: release
     uses: insightsengineering/r.pkg.template/.github/workflows/validation.yaml@main
     secrets:
       REPO_GITHUB_TOKEN: ${{ secrets.REPO_GITHUB_TOKEN }}
+    with:
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/tern
+        insightsengineering/nestcolor
+        insightsengineering/roxy.shinylive
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
   release:
     name: Create release 🎉
     uses: insightsengineering/r.pkg.template/.github/workflows/release.yaml@main
@@ -46,6 +77,21 @@ jobs:
         checking top-level files .* NOTE
       unit-test-report-brand: >-
         https://raw.githubusercontent.com/insightsengineering/hex-stickers/main/thumbs/teal.png
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/roxy.shinylive
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/tern
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
   coverage:
     name: Coverage 📔
     needs: [release, docs]
@@ -55,6 +101,22 @@ jobs:
     with:
       additional-env-vars: |
         NOT_CRAN=true
+      deps-installation-method: setup-r-dependencies
+      lookup-refs: |
+        insightsengineering/roxy.shinylive
+        insightsengineering/teal
+        insightsengineering/teal.transform
+        insightsengineering/teal.code
+        insightsengineering/teal.data
+        insightsengineering/teal.logger
+        insightsengineering/teal.reporter
+        insightsengineering/teal.widgets
+        insightsengineering/teal.slice
+        insightsengineering/tern
+        insightsengineering/formatters
+        insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
   wasm:
     name: Build WASM packages 🧑‍🏭
     needs: release

diff --git a/.github/workflows/scheduled.yaml b/.github/workflows/scheduled.yaml
@@ -3,7 +3,7 @@ name: Scheduled 🕰️
 
 on:
   schedule:
-    - cron: '45 3 * * 0'
+    - cron: "45 3 * * 0"
   workflow_dispatch:
     inputs:
       chosen-workflow:
@@ -63,12 +63,15 @@ jobs:
         insightsengineering/teal.transform
         insightsengineering/teal.code
         insightsengineering/teal.data
-        insightsengineering/teal.slice
         insightsengineering/teal.logger
         insightsengineering/teal.reporter
         insightsengineering/teal.widgets
+        insightsengineering/teal.slice
         insightsengineering/tern
+        insightsengineering/formatters
         insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
   rhub:
     if: >
       github.event_name == 'schedule' || (
@@ -84,9 +87,12 @@ jobs:
         insightsengineering/teal.transform
         insightsengineering/teal.code
         insightsengineering/teal.data
-        insightsengineering/teal.slice
         insightsengineering/teal.logger
         insightsengineering/teal.reporter
         insightsengineering/teal.widgets
+        insightsengineering/teal.slice
         insightsengineering/tern
+        insightsengineering/formatters
         insightsengineering/rtables
+        insightsengineering/rtables.officer
+        insightsengineering/nestcolor
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Type: Package
 Package: teal.modules.general
 Title: General Modules for 'teal' Applications
-Version: 0.3.0.9055
-Date: 2024-11-29
+Version: 0.3.0.9060
+Date: 2024-12-16
 Authors@R: c(
     person("Dawid", "Kaledkowski", , "[email protected]", role = c("aut", "cre")),
     person("Pawel", "Rucki", , "[email protected]", role = "aut"),
@@ -27,7 +27,7 @@ Depends:
     ggplot2 (>= 3.4.0),
     R (>= 3.6),
     shiny (>= 1.6.0),
-    teal (>= 0.15.2.9079),
+    teal (>= 0.15.2.9091),
     teal.transform (>= 0.5.0.9015)
 Imports:
     checkmate (>= 2.1.0),

diff --git a/NEWS.md b/NEWS.md
@@ -1,4 +1,4 @@
-# teal.modules.general 0.3.0.9055
+# teal.modules.general 0.3.0.9060
 
 * Removed `Show Warnings` modals from modules.
 

diff --git a/R/data.R b/R/data.R
diff --git a/R/tm_a_pca.R b/R/tm_a_pca.R
@@ -45,7 +45,7 @@
 #' ```
 #'
 #' For additional details and examples of decorators, refer to the vignette
-#' `vignette("decorate-modules-output", package = "teal")` or the [`teal_transform_module()`] documentation.
+#' `vignette("decorate-modules-output", package = "teal")` or the [`teal::teal_transform_module()`] documentation.
 #'
 #' @examplesShinylive
 #' library(teal.modules.general)
@@ -93,7 +93,7 @@
 #' data <- teal_data()
 #' data <- within(data, {
 #'   require(nestcolor)
-#'   ADSL <- rADSL
+#'   ADSL <- teal.data::rADSL
 #' })
 #' join_keys(data) <- default_cdisc_join_keys[names(data)]
 #'

diff --git a/R/tm_a_regression.R b/R/tm_a_regression.R
@@ -50,7 +50,7 @@
 #' - `plot` (`ggplot2`)
 #'
 #' For additional details and examples of decorators, refer to the vignette
-#' `vignette("decorate-modules-output", package = "teal")` or the [`teal_transform_module()`] documentation.
+#' `vignette("decorate-modules-output", package = "teal")` or the [`teal::teal_transform_module()`] documentation.
 #'
 #' @examplesShinylive
 #' library(teal.modules.general)
@@ -106,7 +106,7 @@
 #' data <- teal_data()
 #' data <- within(data, {
 #'   require(nestcolor)
-#'   ADSL <- rADSL
+#'   ADSL <- teal.data::rADSL
 #' })
 #' join_keys(data) <- default_cdisc_join_keys[names(data)]
 #'

diff --git a/R/tm_data_table.R b/R/tm_data_table.R
@@ -36,7 +36,7 @@
 #' - `table` ([DT::datatable()])
 #'
 #' For additional details and examples of decorators, refer to the vignette
-#' `vignette("decorate-modules-output", package = "teal")` or the [`teal_transform_module()`] documentation.
+#' `vignette("decorate-modules-output", package = "teal")` or the [`teal::teal_transform_module()`] documentation.
 #'
 #' @examplesShinylive
 #' library(teal.modules.general)
@@ -74,7 +74,7 @@
 #' data <- teal_data()
 #' data <- within(data, {
 #'   require(nestcolor)
-#'   ADSL <- rADSL
+#'   ADSL <- teal.data::rADSL
 #' })
 #' join_keys(data) <- default_cdisc_join_keys[names(data)]
 #'

diff --git a/R/tm_front_page.R b/R/tm_front_page.R
@@ -25,7 +25,7 @@
 #' data <- teal_data()
 #' data <- within(data, {
 #'   require(nestcolor)
-#'   ADSL <- rADSL
+#'   ADSL <- teal.data::rADSL
 #'   attr(ADSL, "metadata") <- list("Author" = "NEST team", "data_source" = "synthetic data")
 #' })
 #' join_keys(data) <- default_cdisc_join_keys[names(data)]

diff --git a/R/tm_g_association.R b/R/tm_g_association.R
@@ -31,7 +31,7 @@
 #' - `plot` (`grob` created with [ggplot2::ggplotGrob()])
 #'
 #' For additional details and examples of decorators, refer to the vignette
-#' `vignette("decorate-modules-output", package = "teal")` or the [`teal_transform_module()`] documentation.
+#' `vignette("decorate-modules-output", package = "teal")` or the [`teal::teal_transform_module()`] documentation.
 #'
 #' @examplesShinylive
 #' library(teal.modules.general)
@@ -86,7 +86,7 @@
 #' data <- teal_data()
 #' data <- within(data, {
 #'   require(nestcolor)
-#'   ADSL <- rADSL
+#'   ADSL <- teal.data::rADSL
 #' })
 #' join_keys(data) <- default_cdisc_join_keys[names(data)]
 #'