Merge branch 'main' into test@bslib@main

# Conflicts:
#	R/module_teal.R

Author: vedhav

.github/workflows/check.yaml

@@ -43,16 +43,6 @@ jobs:
       unit-test-report-brand: >-
         https://raw.githubusercontent.com/insightsengineering/hex-stickers/main/thumbs/teal.png
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/formatters
-        insightsengineering/rtables.officer
 
   r-cmd-non-cran:
     name: R CMD Check (non-CRAN) 🧬
@@ -76,16 +66,6 @@ jobs:
         checking for unstated dependencies in vignettes .* NOTE
         checking top-level files .* NOTE
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
 
   coverage:
     name: Coverage 📔
@@ -96,16 +76,6 @@ jobs:
       additional-env-vars: |
         NOT_CRAN=true
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
   linter:
     if: github.event_name != 'push'
     name: SuperLinter 🦸‍♀️
@@ -118,16 +88,6 @@ jobs:
     with:
       auto-update: true
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
   gitleaks:
     name: gitleaks 💧
     uses: insightsengineering/r.pkg.template/.github/workflows/gitleaks.yaml@main

.github/workflows/docs.yaml

@@ -43,13 +43,3 @@ jobs:
       default-landing-page: latest-tag
       additional-unit-test-report-directories: unit-test-report-non-cran
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters

.github/workflows/release.yaml

@@ -17,16 +17,6 @@ jobs:
     with:
       default-landing-page: latest-tag
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
   validation:
     name: R Package Validation report 📃
     needs: release
@@ -35,16 +25,6 @@ jobs:
       REPO_GITHUB_TOKEN: ${{ secrets.REPO_GITHUB_TOKEN }}
     with:
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
   release:
     name: Create release 🎉
     uses: insightsengineering/r.pkg.template/.github/workflows/release.yaml@main
@@ -70,16 +50,6 @@ jobs:
       unit-test-report-brand: >-
         https://raw.githubusercontent.com/insightsengineering/hex-stickers/main/thumbs/teal.png
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
   coverage:
     name: Coverage 📔
     needs: [release, docs]
@@ -90,16 +60,6 @@ jobs:
       additional-env-vars: |
         NOT_CRAN=true
       deps-installation-method: setup-r-dependencies
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
   wasm:
     name: Build WASM packages 🧑‍🏭
     needs: release

.github/workflows/scheduled.yaml

@@ -38,6 +38,8 @@ jobs:
       strategy: ${{ matrix.test-strategy }}
       additional-env-vars: |
         PKG_SYSREQS_DRY_RUN=true
+      extra-deps: |
+        matrixStats (>= 1.5.0)
   branch-cleanup:
     if: >
       github.event_name == 'schedule' || (
@@ -56,17 +58,7 @@ jobs:
       )
     name: revdepcheck ↩️
     uses: insightsengineering/r.pkg.template/.github/workflows/revdepcheck.yaml@main
-    with:
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
+
   rhub:
     if: >
       github.event_name == 'schedule' || (
@@ -75,14 +67,4 @@ jobs:
       )
     name: R-hub 🌐
     uses: insightsengineering/r.pkg.template/.github/workflows/rhub.yaml@main
-    with:
-      lookup-refs: |
-        insightsengineering/teal.data
-        insightsengineering/teal.slice
-        insightsengineering/teal.code
-        insightsengineering/teal.logger
-        insightsengineering/teal.reporter
-        insightsengineering/teal.widgets
-        insightsengineering/rtables
-        insightsengineering/rtables.officer
-        insightsengineering/formatters
+

.pre-commit-config.yaml

@@ -19,7 +19,8 @@ repos:
           - davidgohel/gdtools # for flextable
           - mirai
           - checkmate
-          - crayon
+          - cli
+          - htmltools
           - jsonlite
           - lifecycle
           - logger
@@ -30,6 +31,7 @@ repos:
           - shiny
           - shinyjs
           - stats
+          - insightsengineering/roxy.shinylive
           - insightsengineering/teal.code
           - insightsengineering/teal.data
           - insightsengineering/teal.logger

DESCRIPTION

@@ -1,8 +1,8 @@
 Type: Package
 Package: teal
 Title: Exploratory Web Apps for Analyzing Clinical Trials Data
-Version: 0.15.2.9091
-Date: 2024-11-29
+Version: 0.15.2.9131
+Date: 2025-02-12
 Authors@R: c(
     person("Dawid", "Kaledkowski", , "[email protected]", role = c("aut", "cre"),
            comment = c(ORCID = "0000-0001-9533-457X")),
@@ -35,25 +35,26 @@ URL: https://insightsengineering.github.io/teal/,
     https://github.com/insightsengineering/teal/
 BugReports: https://github.com/insightsengineering/teal/issues
 Depends:
-    R (>= 4.0),
+    R (>= 4.1),
     shiny (>= 1.8.1),
-    teal.data (>= 0.6.0.9017),
-    teal.slice (>= 0.5.1.9015)
+    teal.data (>= 0.7.0),
+    teal.slice (>= 0.6.0)
 Imports:
     bslib (>= 0.8.0),
     checkmate (>= 2.1.0),
-    crayon,
+    cli,
+    htmltools,
     jsonlite,
     lifecycle (>= 0.2.0),
     logger (>= 0.2.0),
     methods,
     rlang (>= 1.0.0),
     shinyjs,
     stats,
-    teal.code (>= 0.5.0.9015),
-    teal.logger (>= 0.2.0),
-    teal.reporter (>= 0.3.1.9004),
-    teal.widgets (>= 0.4.0),
+    teal.code (>= 0.6.0),
+    teal.logger (>= 0.3.1),
+    teal.reporter (>= 0.4.0),
+    teal.widgets (>= 0.4.3),
     tools,
     utils
 Suggests:
@@ -64,6 +65,7 @@ Suggests:
     R6,
     renv (>= 1.0.11),
     rmarkdown (>= 2.23),
+    roxy.shinylive,
     rvest (>= 1.0.0),
     shinytest2,
     shinyvalidate,
@@ -77,25 +79,25 @@ RdMacros:
     lifecycle
 Config/Needs/verdepcheck: rstudio/shiny, insightsengineering/teal.data,
     insightsengineering/teal.slice, mllg/checkmate, jeroen/jsonlite,
-    r-lib/lifecycle, daroczig/logger, shikokuchuo/mirai, r-lib/crayon,
+    r-lib/lifecycle, daroczig/logger, shikokuchuo/mirai, r-lib/cli,
     shikokuchuo/nanonext, rstudio/renv, r-lib/rlang, daattali/shinyjs,
     insightsengineering/teal.code, insightsengineering/teal.logger,
     insightsengineering/teal.reporter, insightsengineering/teal.widgets,
     rstudio/bslib, yihui/knitr, bioc::MultiAssayExperiment, r-lib/R6,
     rstudio/rmarkdown, tidyverse/rvest, rstudio/shinytest2,
     rstudio/shinyvalidate, r-lib/testthat, r-lib/withr,
-    yaml=vubiostat/r-yaml
+    yaml=vubiostat/r-yaml, rstudio/htmltools, bioc::matrixStats,
+    insightsengineering/roxy.shinylive
 Config/Needs/website: insightsengineering/nesttemplate
 Encoding: UTF-8
 Language: en-US
 LazyData: true
-Roxygen: list(markdown = TRUE)
+Roxygen: list(markdown = TRUE, packages = c("roxy.shinylive"))
 RoxygenNote: 7.3.2
 Collate:
     'TealAppDriver.R'
     'checkmate.R'
     'dummy_functions.R'
-    'get_rcode_utils.R'
     'include_css_js.R'
     'modules.R'
     'init.R'
@@ -106,6 +108,7 @@ Collate:
     'module_filter_manager.R'
     'module_init_data.R'
     'module_nested_tabs.R'
+    'module_session_info.R'
     'module_snapshot_manager.R'
     'module_teal.R'
     'module_teal_data.R'
@@ -120,6 +123,7 @@ Collate:
     'teal_data_module-eval_code.R'
     'teal_data_module-within.R'
     'teal_data_utils.R'
+    'teal_modifiers.R'
     'teal_reporter.R'
     'teal_slices-store.R'
     'teal_slices.R'

NAMESPACE

@@ -14,6 +14,7 @@ S3method(ui_teal_module,teal_module)
 S3method(ui_teal_module,teal_modules)
 S3method(within,teal_data_module)
 export(TealReportCard)
+export(add_landing_modal)
 export(as.teal_slices)
 export(as_tdata)
 export(build_app_title)
@@ -23,20 +24,24 @@ export(get_metadata)
 export(init)
 export(landing_popup_module)
 export(make_teal_transform_server)
+export(modify_footer)
+export(modify_header)
+export(modify_title)
 export(module)
 export(modules)
 export(new_tdata)
 export(report_card_template)
 export(reporter_previewer_module)
-export(set_datanames)
 export(show_rcode_modal)
+export(srv_session_info)
 export(srv_teal)
 export(srv_teal_with_splash)
 export(srv_transform_teal_data)
 export(tdata2env)
 export(teal_data_module)
 export(teal_slices)
 export(teal_transform_module)
+export(ui_session_info)
 export(ui_teal)
 export(ui_teal_with_splash)
 export(ui_transform_teal_data)

NEWS.md

@@ -1,21 +1,25 @@
-# teal 0.15.2.9091
+# teal 0.15.2.9131
 
 ### New features
 
 * Possible to call `ui_teal` and `srv_teal` directly in any application by delivering `data` argument as a `reactive` returning `teal_data` object. #669
+* Since introduction of `ui_teal` and `srv_teal` functions `id` argument in `init` is being deprecated. #1438
+* Introduce `ui_session_info` and `srv_session_info` shiny module to create the user session info and teal app lockfile download button.
 * Introduced `teal_transform_module` to provide a way to interactively modify data delivered to `teal_module`'s `server` and to decorate module outputs. #1228 #1384
 * Introduced a new argument `once = FALSE` in `teal_data_module` to possibly reload data during a run time.
 * Possibility to download lockfile to restore app session for reproducibility. #479
-* Introduced a function `set_datanames()` to change a `datanames` of the `teal_module`.
 * Datasets which name starts with `.` are ignored when `module`'s `datanames` is set as `"all"`.
 * Added warning when reserved `datanames`, such as `all` and `.raw_data` are being used. 
+* Added `add_custom_server()` to allow adding custom server logic to the main shiny server function of a teal app.
 
 ### Breaking changes
 
 * Setting `datanames()` on `data` passed to teal application no longer has effect. In order to change `teal_module`'s 
 `datanames` one should modify `module$datanames`.
-* The `landing_popup_module()` needs to be passed as the `landing_popup` argument of `init` instead of being passed as a module of the `modules` argument of `init`.
+* `landing_popup_module()` is deprecated. Please use `add_landing_modal()` function to add a landing popup for your teal application.
 * `teal` no longer re-export `%>%`. Please load `library(magrittr)` instead or use `|>` from `base`.
+* `build_app_title` will be removed in the future release. Please use the `modify_title()` function to change the title for your teal application.
+* The `title`, `header`, and `footer` arguments of the `init()` function are deprecated. Please use the `modify_title`, `modify_header`, and `modify_footer` respectively.
 
 ### Enhancement