Debug code to see what is going on inside selectInput. Trying to set a value contained on server

Add link to Rook spec from docs

.github/shiny-workflows/routine.sh

@@ -0,0 +1,12 @@
+#!/bin/bash -e
+. ./tools/documentation/checkDocsCurrent.sh
+
+echo "Updating package.json version to match DESCRIPTION Version"
+Rscript ./tools/updatePackageJsonVersion.R
+if [ -n "$(git status --porcelain package.json)" ]
+then
+  yarn build
+  git add ./inst package.json && git commit -m 'Sync package version (GitHub Actions)' || echo "No package version to commit"
+else
+  echo "No package version difference detected; package.json is current."
+fi

.github/workflows/R-CMD-check.yaml

@@ -1,150 +1,23 @@
-name: R-CMD-check
+# Workflow derived from https://github.com/rstudio/shiny-workflows
+#
+# NOTE: This Shiny team GHA workflow is overkill for most R packages.
+# For most R packages it is better to use https://github.com/r-lib/actions
 on:
   push:
-    branches:
-      - master
+    branches: [main, rc-**]
   pull_request:
-    branches:
-      - master
+    branches: [main]
+  schedule:
+    - cron: '0 5 * * 1' # every monday
 
+name: Package checks
 
 jobs:
-
+  website:
+    uses: rstudio/shiny-workflows/.github/workflows/website.yaml@v1
+  routine:
+    uses: rstudio/shiny-workflows/.github/workflows/routine.yaml@v1
+    with:
+      node-version: "14.x"
   R-CMD-check:
-    runs-on: ${{ matrix.config.os }}
-
-    name: ${{ matrix.config.os }} (${{ matrix.config.r }})
-
-    strategy:
-      fail-fast: false
-      matrix:
-        config:
-          - {os: macOS-latest,   r: 'devel'}
-          - {os: macOS-latest,   r: '4.0'}
-          - {os: windows-latest, r: '4.0'}
-          - {os: ubuntu-16.04,   r: '4.0', rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"}
-          - {os: ubuntu-16.04,   r: '3.6', rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"}
-          - {os: ubuntu-16.04,   r: '3.5', rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"}
-          - {os: ubuntu-16.04,   r: '3.4', rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"}
-          - {os: ubuntu-16.04,   r: '3.3', rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"}
-
-    env:
-      _R_CHECK_FORCE_SUGGESTS_: false
-      R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
-      RSPM: ${{ matrix.config.rspm }}
-      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
-
-    steps:
-      # https://github.com/actions/checkout/issues/135
-      - name: Set git to use LF
-        if: runner.os == 'Windows'
-        run: |
-          git config --system core.autocrlf false
-          git config --system core.eol lf
-
-      - uses: actions/checkout@v2
-
-      - uses: r-lib/actions/setup-r@master
-        id: install-r
-        with:
-          r-version: ${{ matrix.config.r }}
-
-      - uses: r-lib/actions/setup-pandoc@master
-
-      - name: Install pak and query dependencies
-        shell: Rscript {0}
-        run: |
-          install.packages("pak", repos = "https://r-lib.github.io/p/pak/dev/")
-          saveRDS(pak::pkg_deps_tree("local::.", dependencies = TRUE), ".github/r-depends.rds")
-
-      - name: Cache R packages
-        uses: actions/cache@v2
-        with:
-          path: ${{ env.R_LIBS_USER }}
-          key: ${{ matrix.config.os }}-${{ steps.install-r.outputs.installed-r-version }}-1-${{ hashFiles('.github/r-depends.rds') }}
-          restore-keys: ${{ matrix.config.os }}-${{ steps.install-r.outputs.installed-r-version }}-1-
-
-      - name: Install system dependencies
-        if: runner.os == 'Linux'
-        shell: Rscript {0}
-        run: |
-          pak::local_system_requirements(execute = TRUE)
-      
-      # https://stackoverflow.com/a/66568545/591574
-      #> fatal error: 'X11/Intrinsic.h' file not found
-      - name: Install Cairo macOS R devel dependency
-        if: runner.os == 'macOS' && matrix.config.r == 'devel'
-        run: |
-          brew install libxt
-
-      # xquartz and cairo are needed for Cairo package.
-      # harfbuzz and fribidi are needed for textshaping package.
-      - name: Mac systemdeps
-        if: runner.os == 'macOS'
-        run: |
-          brew install --cask xquartz
-          brew install cairo
-          brew install harfbuzz fribidi
-
-      # Use a shorter temp directory for pak installations, due to filename
-      # length issues on Windows. https://github.com/r-lib/pak/issues/252
-      - name: Windows temp dir
-        if: runner.os == 'Windows'
-        run: |
-          New-Item -Path "C:\" -Name "tmp" -ItemType Directory
-          echo "TMPDIR=c:\tmp" | Out-File -FilePath $env:GITHUB_ENV -Encoding utf8 -Append
-
-      - name: Install dependencies
-        run: |
-          pak::local_install_dev_deps(upgrade = TRUE)
-          pak::pkg_install("rcmdcheck")
-        shell: Rscript {0}
-
-      - name: Find PhantomJS path
-        id: phantomjs
-        run: |
-          echo "::set-output name=path::$(Rscript -e 'cat(shinytest:::phantom_paths()[[1]])')"
-      - name: Cache PhantomJS
-        uses: actions/cache@v2
-        with:
-          path: ${{ steps.phantomjs.outputs.path }}
-          key: ${{ matrix.config.os }}-phantomjs
-          restore-keys: ${{ matrix.config.os }}-phantomjs
-      - name: Install PhantomJS
-        run: >
-          Rscript
-          -e "if (!shinytest::dependenciesInstalled()) shinytest::installDependencies()"
-
-      - name: Session info
-        run: |
-          options(width = 100)
-          pkgs <- installed.packages()[, "Package"]
-          sessioninfo::session_info(pkgs, include_base = TRUE)
-        shell: Rscript {0}
-
-      - name: Check
-        env:
-          _R_CHECK_CRAN_INCOMING_: false
-          _R_CHECK_FORCE_SUGGESTS_: ${{ matrix.config.r != 'devel' }}
-        run: rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check")
-        shell: Rscript {0}
-
-      - name: Show testthat output
-        if: always()
-        run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true
-        shell: bash
-
-      - name: Upload check results
-        if: failure()
-        uses: actions/upload-artifact@v2
-        with:
-          name: ${{ matrix.config.os }}-r${{ matrix.config.r }}-results
-          path: check
-
-      - name: Fix path for Windows caching
-        if: runner.os == 'Windows'
-        # This is needed because if you use the default tar at this stage,
-        # C:/Rtools/bin/tar.exe, it will say that it can't find gzip.exe. So
-        # we'll just set the path so that the original tar that would be
-        # found, will be found.
-        run: echo "C:/Program Files/Git/usr/bin" >> $GITHUB_PATH
+    uses: rstudio/shiny-workflows/.github/workflows/R-CMD-check.yaml@v1

.github/workflows/rituals.yaml

@@ -1,172 +0,0 @@
-on:
-  push:
-    branches:
-      - master
-      - ghactions
-  pull_request:
-    branches:
-      - master
-
-name: Rituals
-
-jobs:
-  rituals:
-    name: Rituals
-    # if: false
-    runs-on: ${{ matrix.config.os }}
-
-
-    strategy:
-      fail-fast: false
-      matrix:
-        config:
-        - { os: ubuntu-16.04, r: '4.0', node: "14.x", rspm: "https://packagemanager.rstudio.com/all/__linux__/xenial/latest"}
-
-    env:
-      R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
-      RSPM: ${{ matrix.config.rspm }}
-      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
-
-    steps:
-      - uses: actions/checkout@v1
-
-      - uses: r-lib/actions/pr-fetch@master
-        name: Git Pull (PR)
-        if: github.event_name == 'pull_request'
-        with:
-          repo-token: ${{ secrets.GITHUB_TOKEN }}
-
-      - uses: r-lib/actions/setup-r@master
-        id: install-r
-        with:
-          r-version: ${{ matrix.config.r }}
-
-      - uses: r-lib/actions/setup-pandoc@master
-
-      - name: Git Config
-        run: |
-          git config user.name "${GITHUB_ACTOR}"
-          git config user.email "${GITHUB_ACTOR}@users.noreply.github.com"
-
-      - name: Install pak and query dependencies
-        shell: Rscript {0}
-        run: |
-          install.packages("pak", repos = "https://r-lib.github.io/p/pak/dev/")
-          saveRDS(pak::pkg_deps_tree("local::.", dependencies = TRUE), ".github/r-depends.rds")
-
-      - name: Cache R packages
-        uses: actions/cache@v2
-        with:
-          path: ${{ env.R_LIBS_USER }}
-          key: ${{ matrix.config.os }}-${{ steps.install-r.outputs.installed-r-version }}-1-${{ hashFiles('.github/r-depends.rds') }}
-          restore-keys: ${{ matrix.config.os }}-${{ steps.install-r.outputs.installed-r-version }}-1-
-
-      - name: Install system dependencies
-        # if: runner.os == 'Linux'
-        shell: Rscript {0}
-        run: |
-          pak::local_system_requirements(execute = TRUE)
-
-      - name: Install dependencies
-        shell: Rscript {0}
-        run: |
-          pak::local_install_dev_deps(upgrade = TRUE)
-
-      - name: Session info
-        shell: Rscript {0}
-        run: |
-          options(width = 100)
-          pak::pkg_install("sessioninfo")
-          pkgs <- installed.packages()[, "Package"]
-          sessioninfo::session_info(pkgs, include_base = TRUE)
-
-      - name: Url redirects
-        # only perform if in an RC branch (`rc-vX.Y.Z`)
-        if: ${{ github.event_name == 'push' && contains(github.ref, '/rc-v') }}
-        run: |
-          Rscript -e 'pak::pkg_install("r-lib/urlchecker"); urlchecker::url_update()'
-          # throw an error if man files were updated
-          if [ -n "$(git status --porcelain man)" ]
-          then
-            git status --porcelain
-            >&2 echo "Updated links found in files above"
-            >&2 echo 'Run `urlchecker::url_update()` to fix links locally'
-            exit 1
-          fi
-          # Add locally changed urls
-          git add .
-          git commit -m 'Update links (GitHub Actions)' || echo "No link changes to commit"
-
-      - name: Document
-        run: |
-          Rscript -e 'pak::pkg_install("devtools")'
-          Rscript -e 'devtools::document()'
-          git add man/\* NAMESPACE
-          git commit -m 'Document (GitHub Actions)' || echo "No documentation changes to commit"
-
-      - name: Check documentation
-        run: |
-          ./tools/documentation/checkDocsCurrent.sh
-
-      - uses: actions/setup-node@v1
-        with:
-          node-version: ${{ matrix.config.node }}
-      # https://github.com/actions/cache/blame/ccf96194800dbb7b7094edcd5a7cf3ec3c270f10/examples.md#L185-L200
-      - name: Get yarn cache directory path
-        id: yarn-cache-dir-path
-        run: echo "::set-output name=dir::$(yarn cache dir)"
-      - name: yarn cache
-        uses: actions/cache@v2
-        id: yarn-cache # use this to check for `cache-hit` (`steps.yarn-cache.outputs.cache-hit != 'true'`)
-        with:
-          path: ${{ steps.yarn-cache-dir-path.outputs.dir }}
-          key: ${{ matrix.config.os }}-${{ matrix.config.node }}-yarn-${{ hashFiles('**/yarn.lock') }}
-          restore-keys: |
-            ${{ matrix.config.os }}-${{ matrix.config.node }}-yarn-
-
-      - name: Sync DESCRIPTION and package.json versions
-        run: |
-          Rscript -e 'pak::pkg_install("jsonlite")'
-          Rscript -e 'pkg <- jsonlite::read_json("package.json", simplifyVector = TRUE)' \
-          -e 'version <- as.list(read.dcf("DESCRIPTION")[1,])$Version' \
-          -e 'pkg$version <- gsub("^(\\d+).(\\d+).(\\d+).(.+)$", "\\1.\\2.\\3-alpha.\\4", version)' \
-          -e 'pkg$files <- as.list(pkg$files)' \
-          -e 'jsonlite::write_json(pkg, path = "package.json", pretty = TRUE, auto_unbox = TRUE)'
-          git add package.json && git commit -m 'sync package version (GitHub Actions)' || echo "No version changes to commit"
-      - name: Build JS
-        run: |
-          tree srcts
-          rm -r srcts/types
-          yarn install --immutable && yarn build
-          git add ./srcts/src && git commit -m 'yarn lint (GitHub Actions)' || echo "No yarn lint changes to commit"
-          git add ./srcts/types && git commit -m 'yarn tsc (GitHub Actions)' || echo "No type definition changes to commit"
-          git add ./inst && git commit -m 'yarn build (GitHub Actions)' || echo "No yarn build changes to commit"
-          if [ -n "$(git status --porcelain)" ]
-          then
-            git status --porcelain
-            >&2 echo "The above files changed when we built the JavaScript assets."
-            exit 1
-          else
-            echo "No difference detected; TypeScript build is current."
-          fi
-
-      - name: Git Push (PR)
-        uses: r-lib/actions/pr-push@master
-        if: github.event_name == 'pull_request'
-        with:
-          repo-token: ${{ secrets.GITHUB_TOKEN }}
-      - name: Verify no un-pushed commits (MASTER)
-        if: github.event_name == 'push'
-        run: |
-          # Can't push to a protected branch
-          if [ -n "`git cherry origin/master`"]; then
-            echo "Un-pushed commits:"
-            git cherry -v origin/master
-            echo "\nCan not push to a protected branch. Exiting"
-            exit 1
-          fi
-
-      # Execute after pushing, as no updated files will be produced
-      - name: Test TypeScript code
-        run: |
-          yarn test

.gitignore

@@ -12,7 +12,7 @@ README.html
 tools/yarn-error.log
 
 # TypeScript / yarn
-node_modules/
+/node_modules/
 .cache
 .yarn/*
 !.yarn/releases

.prettierrc.yml

@@ -1,3 +0,0 @@
-trailingComma: "es5"
-arrowParens: always
-endOfLine: lf

.vscode/settings.json

@@ -1,10 +1,18 @@
 {
-  "typescript.tsdk": ".yarn/sdks/typescript/lib",
   "search.exclude": {
     "**/.yarn": true,
     "**/.pnp.*": true
   },
-  "eslint.nodePath": ".yarn/sdks",
-  "prettier.prettierPath": ".yarn/sdks/prettier/index.js",
-  "typescript.enablePromptUseWorkspaceTsdk": true
+  "prettier.prettierPath": "./node_modules/prettier",
+  "typescript.enablePromptUseWorkspaceTsdk": true,
+  "[r]": {
+    "files.trimTrailingWhitespace": true,
+    "files.insertFinalNewline": true,
+  },
+  "[typescript]": {
+    "editor.defaultFormatter": "esbenp.prettier-vscode",
+    "editor.formatOnSave": true,
+    "files.trimTrailingWhitespace": true,
+    "files.insertFinalNewline": true,
+  },
 }

DESCRIPTION

@@ -1,7 +1,7 @@
 Package: shiny
 Type: Package
 Title: Web Application Framework for R
-Version: 1.6.0.9022
+Version: 1.7.2.9000
 Authors@R: c(
     person("Winston", "Chang", role = c("aut", "cre"), email = "winston@rstudio.com", comment = c(ORCID = "0000-0002-1576-2126")),
     person("Joe", "Cheng", role = "aut", email = "joe@rstudio.com"),
@@ -79,7 +79,7 @@ Imports:
     jsonlite (>= 0.9.16),
     xtable,
     fontawesome (>= 0.2.1),
-    htmltools (>= 0.5.1.9003),
+    htmltools (>= 0.5.2),
     R6 (>= 2.0),
     sourcetools,
     later (>= 1.0.0),
@@ -91,7 +91,7 @@ Imports:
     withr,
     commonmark (>= 1.7),
     glue (>= 1.3.2),
-    bslib (>= 0.2.5.9002),
+    bslib (>= 0.3.0),
     cachem,
     ellipsis,
     lifecycle (>= 0.2.0)
@@ -105,17 +105,12 @@ Suggests:
     ggplot2,
     reactlog (>= 1.0.0),
     magrittr,
-    shinytest (>= 1.4.0.9003),
     yaml,
     future,
     dygraphs,
     ragg,
     showtext,
     sass
-Remotes:
-    r-lib/rlang,
-    rstudio/bslib,
-    rstudio/htmltools
 URL: https://shiny.rstudio.com/
 BugReports: https://github.com/rstudio/shiny/issues
 Collate:
@@ -193,6 +188,7 @@ Collate:
     'shinywrappers.R'
     'showcase.R'
     'snapshot.R'
+    'staticimports.R'
     'tar.R'
     'test-export.R'
     'test-server.R'
@@ -205,8 +201,10 @@ Collate:
     'version_selectize.R'
     'version_strftime.R'
     'viewer.R'
-RoxygenNote: 7.1.1
+RoxygenNote: 7.2.1
 Encoding: UTF-8
 Roxygen: list(markdown = TRUE)
 RdMacros: lifecycle
 Config/testthat/edition: 3
+Config/Needs/check:
+  rstudio/shinytest2

NEWS.md

@@ -1,6 +1,73 @@
-shiny 1.6.0.9000
+shiny 1.7.2.9000
 ================
 
+
+
+shiny 1.7.2
+===========
+
+## Full changelog
+
+### Breaking changes
+
+* Closed #3626: `renderPlot()` (and `plotPNG()`) now uses `ragg::agg_png()` by default when the [`{ragg}` package](https://github.com/r-lib/ragg) is installed. To restore the previous behavior, set `options(shiny.useragg = FALSE)`. (#3654)
+
+### New features and improvements
+
+* Closed #1545: `insertUI()` now executes `<script>` tags. (#3630)
+
+* `fileInput()` can set the `capture` attribute to facilitates user access to a device's media capture mechanism, such as a camera, or microphone, from within a file upload control ([W3C HTML Media Capture](https://www.w3.org/TR/html-media-capture/)). (Thanks to khaled-alshamaa, #3481)
+
+* Closed tidyverse/dplyr#5552: Compatibility of dplyr 1.0 (and rlang chained errors in general) with `req()`, `validate()`, and friends.
+
+* Closed tidyverse/dplyr#6154: Values from an `actionButton()` had S3 classes in the incorrect order.
+
+* Closed #3346: Default for `ref` input in `runGithub()` changed from `"master"` to `"HEAD"`. (#3564)
+
+* Closed #3619: In R 4.2, `splitLayout()` no longer raises warnings about incorrect length in an `if` statement. (Thanks to @dmenne, #3625)
+
+### Bug fixes
+
+* Closed #3250:`{rlang}`/`{tidyeval}` conditions (i.e., warnings and errors) are no longer filtered from stack traces. (#3602)
+
+* Closed #3581: Errors in throttled/debounced reactive expressions no longer cause the session to exit. (#3624)
+
+* Closed #3657: `throttle.ts` and the `Throttler` typescript objects it provides now function as intended. (Thanks gto @dvg-p4, #3659)
+
+* The auto-reload feature (`options(shiny.autoreload=TRUE)`) was not being activated by `devmode(TRUE)`, despite a console message asserting that it was. (#3620)
+
+* Closed #2297: If an error occurred in parsing a value in a bookmark query string, an error would be thrown and nothing would be restored. Now a message is displayed and that value is ignored. (Thanks to @daattali, #3385)
+
+* Restored the previous behavior of automatically guessing the `Content-Type` header for `downloadHandler` functions when no explicit `contentType` argument is supplied. (#3393)
+
+* Previously, updating an input value without a corresponding Input binding element did not trigger a JavaScript `shiny:inputchanged` event. Now, if no Input binding element is found, the `shiny:inputchanged` event is triggered on `window.document`. (#3584)
+
+* Closed #2955: Input and output bindings previously attempted to use `el['data-input-id']`, but that never worked. They now use `el.getAttribute('data-input-id')` instead. (#3538)
+
+### Minor improvements
+
+* When taking a test snapshot, the sort order of the json keys of the `input`, `output`, and `export` fields is currently sorted using the locale of the machine. This can lead to inconsistent test snapshot results. To opt-in to a consistent ordering of snapshot fields with `{shinytest}`, please set the global option `options(shiny.snapshotsortc = TRUE)`. `{shinytest2}` users do not need to set this value. (#3515)
+
+* Closed rstudio/shinytest2#222: When restoring a context (i.e., bookmarking) from a URL, Shiny now better handles a trailing `=` after `_inputs_` and `_values_`. (#3648)
+
+* Shiny's internal HTML dependencies are now mounted dynamically instead of statically. (#3537)
+
+* HTML dependencies that are sent to dynamic UI now have better type checking, and no longer require a `dep.src.href` field. (#3537)
+
+
+shiny 1.7.1
+===========
+
+## Bug Fixes
+
+* Closed #3516: Fix regression in repeated calls to `appendTab()` when `navbarMenu()` is already present within a `tabsetPanel()`/`navbarPage()`. (#3518)
+
+* Re-arranged conditions for testthat 1.0.0 compatibility. (#3512)
+
+
+shiny 1.7.0
+===========
+
 ## Full changelog
 
 ### Breaking changes
@@ -18,7 +85,7 @@ shiny 1.6.0.9000
 
 * All uses of `list(...)` have been replaced with `rlang::list2(...)`. This means that you can use trailing `,` without error and use rlang's `!!!` operator to "splice" a list of argument values into `...`. We think this'll be particularly useful for passing a list of `tabPanel()` to their consumers (i.e., `tabsetPanel()`, `navbarPage()`, etc). For example, `tabs <- list(tabPanel("A", "a"), tabPanel("B", "b")); navbarPage(!!!tabs)`. (#3315 and #3328)
 
-* `installExprFunction()` and `exprToFunction()` are now able to handle quosures, so `render`-functions which call these functions can now understand quosures, when they are called using `rlang::inject()`. This also means that `render` function no longer need `env` and `quoted` parameters; that information can be embedded into a quosure which is then passed to the `render` function. Additionally, the `getQuosure()` function was added, which makes it easier for developers to create `render` functions which understand quosures. Better documentation was added for how to create `render` functions. (#3462, #3466)
+* `installExprFunction()` and `exprToFunction()` are now able to handle quosures when `quoted = TRUE`. So `render`-functions which call these functions (such as with `htmlwidgets`) can now understand quosures. Users can also use `rlang::inject()` to unquote a quosure for evaluation.  This also means that `render` function no longer need `env` and `quoted` parameters; that information can be embedded into a quosure which is then passed to the `render` function. Better documentation was added for how to create `render` functions. (#3472)
 
 * `icon(lib="fontawesome")` is now powered by the `{fontawesome}` package, which will make it easier to use the latest FA icons in the future (by updating the `{fontawesome}` package). (#3302)
 
@@ -30,7 +97,7 @@ shiny 1.6.0.9000
 
 ### Other improvements
 
-* Shiny's core JavaScript code was converted to TypeScript. For the latest development information, please see the [README.md in `./srcts`](https://github.com/rstudio/shiny/tree/master/srcts). (#3296)
+* Shiny's core JavaScript code was converted to TypeScript. For the latest development information, please see the [README.md in `./srcts`](https://github.com/rstudio/shiny/tree/v1.7.0/srcts). (#3296)
 
 * Switched from `digest::digest()` to `rlang::hash()` for hashing. (#3264)
 
@@ -44,10 +111,12 @@ shiny 1.6.0.9000
 
 * Fixed [#2666](https://github.com/rstudio/shiny/issues/2666) and [#2670](https://github.com/rstudio/shiny/issues/2670): `nearPoints()` and `brushedPoints()` weren't properly account for missing values (#2666 was introduced in v1.4.0). ([#2668](https://github.com/rstudio/shiny/pull/2668))
 
-* Closed #3374: `quoToFunction()` now works correctly with nested quosures; and as a result, quasi-quotation with rendering function (e.g., `renderPrint()`, `renderPlot()`, etc) now works as expected with nested quosures. (#3373) 
+* Closed #3374: `quoToFunction()` now works correctly with nested quosures; and as a result, quasi-quotation with rendering function (e.g., `renderPrint()`, `renderPlot()`, etc) now works as expected with nested quosures. (#3373)
 
 * Exported `register_devmode_option()`. This method was described in the documentation for `devmode()` but was never exported. See `?devmode()` for more details on how to register Shiny Developer options using `register_devmode_option()`. (#3364)
 
+* Closed #3484: In the RStudio IDE on Mac 11.5, selected checkboxes and radio buttons were not visible. (#3485)
+
 ### Library updates
 
 * Closed #3286: Updated to Font-Awesome 5.15.2. (#3288)
@@ -61,7 +130,7 @@ This release focuses on improvements in three main areas:
 
 1. Better theming (and Bootstrap 4) support:
   * The `theme` argument of `fluidPage()`, `navbarPage()`, and `bootstrapPage()` all now understand `bslib::bs_theme()` objects, which can be used to opt-into Bootstrap 4, use any Bootswatch theme, and/or implement custom themes without writing any CSS.
-  * The `session` object now includes `$setCurrentTheme()` and `$getCurrentTheme()` methods to dynamically update (or obtain) the page's `theme` after initial load, which is useful for things such as [adding a dark mode switch to an app](https://rstudio.github.io/bslib/articles/theming.html#dynamic-shiny) or some other "real-time" theming tool like `bslib::bs_themer()`.
+  * The `session` object now includes `$setCurrentTheme()` and `$getCurrentTheme()` methods to dynamically update (or obtain) the page's `theme` after initial load, which is useful for things such as [adding a dark mode switch to an app](https://rstudio.github.io/bslib/articles/bslib.html#dynamic) or some other "real-time" theming tool like `bslib::bs_themer()`.
   * For more details, see [`{bslib}`'s website](https://rstudio.github.io/bslib/)
 
 2. Caching of `reactive()` and `render*()` (e.g. `renderText()`, `renderTable()`, etc) expressions.
@@ -183,7 +252,7 @@ shiny 1.5.0
 
 * The new `moduleServer` function provides a simpler interface for creating and using modules. (#2773)
 
-* Resolved #2732: `markdown()` is a new function for writing Markdown with Github extensions directly in Shiny UIs. Markdown rendering is performed by the [commonmark](https://github.com/jeroen/commonmark) package. (#2737)
+* Resolved #2732: `markdown()` is a new function for writing Markdown with Github extensions directly in Shiny UIs. Markdown rendering is performed by the [commonmark](https://github.com/r-lib/commonmark) package. (#2737)
 
 * The `getCurrentOutputInfo()` function can now return the background color (`bg`), foreground color (`fg`), `accent` (i.e., hyperlink) color, and `font` information of the output's HTML container. This information is reported by `plotOutput()`, `imageOutput()`, and any other output bindings containing a class of `.shiny-report-theme`. This feature allows developers to style an output's contents based on the container's CSS styling.  (#2740)
 
@@ -449,7 +518,7 @@ This is a significant release for Shiny, with a major new feature that was nearl
 
 * Removed the (ridiculously outdated) "experimental feature" tag from the reference documentation for `renderUI`. (#2036)
 
-* Addressed #1907: the `ignoreInit` argument was first added only to `observeEvent`. Later, we also added it to `eventReactive`, but forgot to update the documentation. Now done, thanks [@flo12392](https://github.com/flo12392)! (#2036)
+* Addressed #1907: the `ignoreInit` argument was first added only to `observeEvent`. Later, we also added it to `eventReactive`, but forgot to update the documentation. Now done, thanks @flo12392! (#2036)
 
 ### Bug fixes
 
@@ -463,7 +532,7 @@ This is a significant release for Shiny, with a major new feature that was nearl
 
 * Fixed #1600: URL-encoded bookmarking did not work with sliders that had dates or date-times. (#1961)
 
-* Fixed #1962: [File dragging and dropping](https://blog.rstudio.com/2017/08/15/shiny-1-0-4/) broke in the presence of jQuery version 3.0 as introduced by the [rhandsontable](https://jrowen.github.io/rhandsontable/) [htmlwidget](https://www.htmlwidgets.org/). (#2005)
+* Fixed #1962: [File dragging and dropping](https://www.rstudio.com/blog/shiny-1-0-4/) broke in the presence of jQuery version 3.0 as introduced by the [rhandsontable](https://jrowen.github.io/rhandsontable/) [htmlwidget](https://www.htmlwidgets.org/). (#2005)
 
 * Improved the error handling inside the `addResourcePath()` function, to give end users more informative error messages when the `directoryPath` argument cannot be normalized. This is especially useful for `runtime: shiny_prerendered` Rmd documents, like `learnr` tutorials. (#1968)
 

R/app_template.R

@@ -10,8 +10,7 @@
 #' 2: app.R              : Main application file
 #' 3: R/example.R        : Helper file with R code
 #' 4: R/example-module.R : Example module
-#' 5: tests/shinytest/   : Tests using the shinytest package
-#' 6: tests/testthat/    : Tests using the testthat package
+#' 5: tests/testthat/    : Tests using the testthat and shinytest2 package
 #' ```
 #'
 #' If option 1 is selected, the full example application including the
@@ -24,13 +23,11 @@
 #' |   |- example-module.R
 #' |   `- example.R
 #' `- tests
-#'     |- shinytest.R
-#'     |- shinytest
-#'     |   `- mytest.R
 #'     |- testthat.R
 #'     `- testthat
 #'         |- test-examplemodule.R
 #'         |- test-server.R
+#'         |- test-shinytest2.R
 #'         `- test-sort.R
 #' ```
 #'
@@ -45,20 +42,20 @@
 #' * `tests/` contains various tests for the application. You may
 #'   choose to use or remove any of them. They can be executed by the
 #'   [runTests()] function.
-#' * `tests/shinytest.R` is a test runner for test files in the
-#'   `tests/shinytest/` directory.
-#' * `tests/shinytest/mytest.R` is a test that uses the
-#'   [shinytest](https://rstudio.github.io/shinytest/) package to do
-#'   snapshot-based testing.
 #' * `tests/testthat.R` is a test runner for test files in the
-#'   `tests/testthat/` directory using the [testthat](https://testthat.r-lib.org/) package.
+#'   `tests/testthat/` directory using the
+#'   [shinytest2](https://rstudio.github.io/shinytest2/reference/test_app.html)
+#'   package.
 #' * `tests/testthat/test-examplemodule.R` is a test for an application's module server function.
 #' * `tests/testthat/test-server.R` is a test for the application's server code
+#' * `tests/testthat/test-shinytest2.R` is a test that uses the
+#'   [shinytest2](https://rstudio.github.io/shinytest2/) package to do
+#'   snapshot-based testing.
 #' * `tests/testthat/test-sort.R` is a test for a supporting function in the `R/` directory.
 #'
 #' @param path Path to create new shiny application template.
 #' @param examples Either one of "default", "ask", "all", or any combination of
-#'   "app", "rdir", "module", "shinytest", and "testthat". In an
+#'   "app", "rdir", "module", and "tests". In an
 #'   interactive session, "default" falls back to "ask"; in a non-interactive
 #'   session, "default" falls back to "all". With "ask", this function will
 #'   prompt the user to select which template items will be added to the new app
@@ -79,15 +76,19 @@ shinyAppTemplate <- function(path = NULL, examples = "default", dryrun = FALSE)
   # =======================================================
 
   choices <- c(
-    app       = "app.R              : Main application file",
-    rdir      = "R/example.R        : Helper file with R code",
-    module    = "R/example-module.R : Example module",
-    shinytest = "tests/shinytest/   : Tests using the shinytest package",
-    testthat  = "tests/testthat/    : Tests using the testthat package"
+    app    = "app.R              : Main application file",
+    rdir   = "R/example.R        : Helper file with R code",
+    module = "R/example-module.R : Example module",
+    tests  = "tests/testthat/    : Tests using {testthat} and {shinytest2}"
   )
 
+  # Support legacy value
+  examples[examples == "shinytest"] <- "tests"
+  examples[examples == "testthat"] <- "tests"
+  examples <- unique(examples)
+
   if (identical(examples, "default")) {
-    if (interactive()) {
+    if (rlang::is_interactive()) {
       examples <- "ask"
     } else {
       examples <- "all"
@@ -124,18 +125,8 @@ shinyAppTemplate <- function(path = NULL, examples = "default", dryrun = FALSE)
     return(invisible())
   }
 
-  if ("shinytest" %in% examples) {
-    if (!is_available("shinytest", "1.4.0"))
-    {
-      message(
-        "The tests/shinytest directory needs shinytest 1.4.0 or later to work properly."
-      )
-      if (is_available("shinytest")) {
-        message("You currently have shinytest ",
-                utils::packageVersion("shinytest"), " installed.")
-      }
-
-    }
+  if ("tests" %in% examples) {
+    rlang::check_installed("shinytest2", "for {testthat} tests to work as expected")
   }
 
   # =======================================================
@@ -152,7 +143,7 @@ shinyAppTemplate <- function(path = NULL, examples = "default", dryrun = FALSE)
 
   # Helper to resolve paths relative to our template
   template_path <- function(...) {
-    system.file("app_template", ..., package = "shiny")
+    system_file("app_template", ..., package = "shiny")
   }
 
   # Resolve path relative to destination
@@ -208,16 +199,13 @@ shinyAppTemplate <- function(path = NULL, examples = "default", dryrun = FALSE)
   }
 
   # Copy the files for a tests/ subdirectory
-  copy_test_dir <- function(name) {
+  copy_test_dir <- function() {
     files <- dir(template_path("tests"), recursive = TRUE)
-    # Note: This is not the same as using dir(pattern = "^shinytest"), since
-    # that will not match files inside of shinytest/.
-    files <- files[grepl(paste0("^", name), files)]
 
     # Filter out files that are not module files in the R directory.
     if (! "rdir" %in% examples) {
       # find all files in the testthat folder that are not module or server files
-      is_r_folder_file <- (!grepl("module|server", basename(files))) & (dirname(files) == "testthat")
+      is_r_folder_file <- !grepl("module|server|shinytest2|testthat", basename(files))
       files <- files[!is_r_folder_file]
     }
 
@@ -282,12 +270,10 @@ shinyAppTemplate <- function(path = NULL, examples = "default", dryrun = FALSE)
     copy_file(file.path("R", module_files))
   }
 
-  # tests/ dir
-  if ("shinytest" %in% examples) {
-    copy_test_dir("shinytest")
-  }
-  if ("testthat" %in% examples) {
-    copy_test_dir("testthat")
+  # tests/testthat dir
+  if ("tests" %in% examples) {
+    copy_test_dir()
   }
+
   invisible()
 }

R/bind-cache.R

@@ -255,7 +255,7 @@ utils::globalVariables(".GenericCallEnv", add = TRUE)
 #'   the cache.
 #'
 #'   You may need to provide a `cacheHint` to [createRenderFunction()] (or
-#'   [htmlwidgets::shinyRenderWidget()], if you've authored an htmlwidget) in
+#'   `htmlwidgets::shinyRenderWidget()`, if you've authored an htmlwidget) in
 #'   order for `bindCache()` to correctly compute a cache key.
 #'
 #'   The potential problem is a cache collision. Consider the following:

R/bookmark-state.R

@@ -321,34 +321,38 @@ RestoreContext <- R6Class("RestoreContext",
       if (substr(queryString, 1, 1) == '?')
         queryString <- substr(queryString, 2, nchar(queryString))
 
+      # The "=" after "_inputs_" is optional. Shiny doesn't generate URLs with
+      # "=", but httr always adds "=".
+      inputs_reg <- "(^|&)_inputs_=?(&|$)"
+      values_reg <- "(^|&)_values_=?(&|$)"
 
       # Error if multiple '_inputs_' or '_values_'. This is needed because
       # strsplit won't add an entry if the search pattern is at the end of a
       # string.
-      if (length(gregexpr("(^|&)_inputs_(&|$)", queryString)[[1]]) > 1)
+      if (length(gregexpr(inputs_reg, queryString)[[1]]) > 1)
         stop("Invalid state string: more than one '_inputs_' found")
-      if (length(gregexpr("(^|&)_values_(&|$)", queryString)[[1]]) > 1)
+      if (length(gregexpr(values_reg, queryString)[[1]]) > 1)
         stop("Invalid state string: more than one '_values_' found")
 
       # Look for _inputs_ and store following content in inputStr
-      splitStr <- strsplit(queryString, "(^|&)_inputs_(&|$)")[[1]]
+      splitStr <- strsplit(queryString, inputs_reg)[[1]]
       if (length(splitStr) == 2) {
         inputStr <- splitStr[2]
         # Remove any _values_ (and content after _values_) that may come after
         # _inputs_
-        inputStr <- strsplit(inputStr, "(^|&)_values_(&|$)")[[1]][1]
+        inputStr <- strsplit(inputStr, values_reg)[[1]][1]
 
       } else {
         inputStr <- ""
       }
 
       # Look for _values_ and store following content in valueStr
-      splitStr <- strsplit(queryString, "(^|&)_values_(&|$)")[[1]]
+      splitStr <- strsplit(queryString, values_reg)[[1]]
       if (length(splitStr) == 2) {
         valueStr <- splitStr[2]
         # Remove any _inputs_ (and content after _inputs_) that may come after
         # _values_
-        valueStr <- strsplit(valueStr, "(^|&)_inputs_(&|$)")[[1]][1]
+        valueStr <- strsplit(valueStr, inputs_reg)[[1]][1]
 
       } else {
         valueStr <- ""
@@ -359,16 +363,20 @@ RestoreContext <- R6Class("RestoreContext",
       values <- parseQueryString(valueStr, nested = TRUE)
 
       valuesFromJSON <- function(vals) {
-        mapply(names(vals), vals, SIMPLIFY = FALSE,
+        varsUnparsed <- c()
+        valsParsed <- mapply(names(vals), vals, SIMPLIFY = FALSE,
           FUN = function(name, value) {
             tryCatch(
               safeFromJSON(value),
               error = function(e) {
-                stop("Failed to parse URL parameter \"", name, "\"")
+                varsUnparsed <<- c(varsUnparsed, name)
+                warning("Failed to parse URL parameter \"", name, "\"")
               }
             )
           }
         )
+        valsParsed[varsUnparsed] <- NULL
+        valsParsed
       }
 
       inputs <- valuesFromJSON(inputs)

R/bootstrap-deprecated.R

@@ -6,7 +6,7 @@
 #' @param sidebarPanel The [sidebarPanel] containing input controls
 #' @param mainPanel The [mainPanel] containing outputs
 #' @keywords internal
-#' @return A UI defintion that can be passed to the [shinyUI] function
+#' @return A UI definition that can be passed to the [shinyUI] function
 #' @export
 pageWithSidebar <- function(headerPanel,
                             sidebarPanel,

R/bootstrap-layout.R

@@ -13,7 +13,7 @@
 #'   Can also be set as a side effect of the [titlePanel()] function.
 #' @inheritParams bootstrapPage
 #'
-#' @return A UI defintion that can be passed to the [shinyUI] function.
+#' @return A UI definition that can be passed to the [shinyUI] function.
 #'
 #' @details To create a fluid page use the `fluidPage` function and include
 #'   instances of `fluidRow` and [column()] within it. As an
@@ -111,7 +111,7 @@ fluidRow <- function(...) {
 #' @param title The browser window title (defaults to the host URL of the page)
 #' @inheritParams bootstrapPage
 #'
-#' @return A UI defintion that can be passed to the [shinyUI] function.
+#' @return A UI definition that can be passed to the [shinyUI] function.
 #'
 #' @details To create a fixed page use the `fixedPage` function and include
 #'   instances of `fixedRow` and [column()] within it. Note that
@@ -516,7 +516,7 @@ splitLayout <- function(..., cellWidths = NULL, cellArgs = list()) {
   children <- children[childIdx]
   count <- length(children)
 
-  if (length(cellWidths) == 0 || is.na(cellWidths)) {
+  if (length(cellWidths) == 0 || isTRUE(is.na(cellWidths))) {
     cellWidths <- sprintf("%.3f%%", 100 / count)
   }
   cellWidths <- rep(cellWidths, length.out = count)

R/bootstrap.R

@@ -24,7 +24,7 @@ NULL
 #'   This will be used as the lang in the \code{<html>} tag, as in \code{<html lang="en">}.
 #'   The default (NULL) results in an empty string.
 #'
-#' @return A UI defintion that can be passed to the [shinyUI] function.
+#' @return A UI definition that can be passed to the [shinyUI] function.
 #'
 #' @note The `basicPage` function is deprecated, you should use the
 #'   [fluidPage()] function instead.
@@ -138,8 +138,7 @@ bs_theme_deps <- function(theme) {
 }
 
 is_bs_theme <- function(x) {
-  is_available("bslib", "0.2.0.9000") &&
-    bslib::is_bs_theme(x)
+  bslib::is_bs_theme(x)
 }
 
 #' Obtain Shiny's Bootstrap Sass theme
@@ -215,11 +214,10 @@ registerThemeDependency <- function(func) {
 
 bootstrapDependency <- function(theme) {
   htmlDependency(
-    "bootstrap", bootstrapVersion,
-    c(
-      href = "shared/bootstrap",
-      file = system.file("www/shared/bootstrap", package = "shiny")
-    ),
+    "bootstrap",
+    bootstrapVersion,
+    src = "www/shared/bootstrap",
+    package = "shiny",
     script = c(
       "js/bootstrap.min.js",
       # Safely adding accessibility plugin for screen readers and keyboard users; no break for sighted aspects (see https://github.com/paypal/bootstrap-accessibility-plugin)
@@ -387,7 +385,7 @@ collapseSizes <- function(padding) {
 #' @inheritParams bootstrapPage
 #' @param icon Optional icon to appear on a `navbarMenu` tab.
 #'
-#' @return A UI defintion that can be passed to the [shinyUI] function.
+#' @return A UI definition that can be passed to the [shinyUI] function.
 #'
 #' @details The `navbarMenu` function can be used to create an embedded
 #'   menu within the navbar that in turns includes additional tabPanels (see
@@ -1109,11 +1107,17 @@ tableOutput <- function(outputId) {
 
 dataTableDependency <- list(
   htmlDependency(
-    "datatables", "1.10.5", c(href = "shared/datatables"),
+    "datatables",
+    "1.10.5",
+    src = "www/shared/datatables",
+    package = "shiny",
     script = "js/jquery.dataTables.min.js"
   ),
   htmlDependency(
-    "datatables-bootstrap", "1.10.5", c(href = "shared/datatables"),
+    "datatables-bootstrap",
+    "1.10.5",
+    src = "www/shared/datatables",
+    package = "shiny",
     stylesheet = c("css/dataTables.bootstrap.css", "css/dataTables.extra.css"),
     script = "js/dataTables.bootstrap.js"
   )
@@ -1153,7 +1157,7 @@ dataTableOutput <- function(outputId) {
 htmlOutput <- function(outputId, inline = FALSE,
   container = if (inline) span else div, ...)
 {
-  if (anyUnnamed(list(...))) {
+  if (any_unnamed(list(...))) {
     warning("Unnamed elements in ... will be replaced with dynamic UI.")
   }
   container(id = outputId, class="shiny-html-output", ...)

R/conditions.R

@@ -228,7 +228,9 @@ withLogErrors <- function(expr,
       if (promises::is.promise(result)) {
         result <- promises::catch(result, function(cond) {
           # Don't print shiny.silent.error (i.e. validation errors)
-          if (inherits(cond, "shiny.silent.error")) return()
+          if (cnd_inherits(cond, "shiny.silent.error")) {
+            return()
+          }
           if (isTRUE(getOption("show.error.messages"))) {
             printError(cond, full = full, offset = offset)
           }
@@ -239,7 +241,7 @@ withLogErrors <- function(expr,
     },
     error = function(cond) {
       # Don't print shiny.silent.error (i.e. validation errors)
-      if (inherits(cond, "shiny.silent.error")) return()
+      if (cnd_inherits(cond, "shiny.silent.error")) return()
       if (isTRUE(getOption("show.error.messages"))) {
         printError(cond, full = full, offset = offset)
       }
@@ -419,8 +421,17 @@ pruneStackTrace <- function(parents) {
   # Loop over the parent indices. Anything that is not parented by current_node
   # (a.k.a. last-known-good node), or is a dupe, can be discarded. Anything that
   # is kept becomes the new current_node.
+  #
+  # jcheng 2022-03-18: Two more reasons a node can be kept:
+  #   1. parent is 0
+  #   2. parent is i
+  # Not sure why either of these situations happen, but they're common when
+  # interacting with rlang/dplyr errors. See issue rstudio/shiny#3250 for repro
+  # cases.
   include <- vapply(seq_along(parents), function(i) {
-    if (!is_dupe[[i]] && parents[[i]] == current_node) {
+    if ((!is_dupe[[i]] && parents[[i]] == current_node) ||
+        parents[[i]] == 0 ||
+        parents[[i]] == i) {
       current_node <<- i
       TRUE
     } else {

R/globals.R

@@ -1,55 +1,6 @@
 # A scope where we can put mutable global state
 .globals <- new.env(parent = emptyenv())
 
-register_s3_method <- function(pkg, generic, class, fun = NULL) {
-  stopifnot(is.character(pkg), length(pkg) == 1)
-  stopifnot(is.character(generic), length(generic) == 1)
-  stopifnot(is.character(class), length(class) == 1)
-
-  if (is.null(fun)) {
-    fun <- get(paste0(generic, ".", class), envir = parent.frame())
-  } else {
-    stopifnot(is.function(fun))
-  }
-
-  if (pkg %in% loadedNamespaces()) {
-    registerS3method(generic, class, fun, envir = asNamespace(pkg))
-  }
-
-  # Always register hook in case pkg is loaded at some
-  # point the future (or, potentially, but less commonly,
-  # unloaded & reloaded)
-  setHook(
-    packageEvent(pkg, "onLoad"),
-    function(...) {
-      registerS3method(generic, class, fun, envir = asNamespace(pkg))
-    }
-  )
-}
-
-register_upgrade_message <- function(pkg, version) {
-
-  msg <- sprintf(
-    "This version of Shiny is designed to work with '%s' >= %s.
-    Please upgrade via install.packages('%s').",
-    pkg, version, pkg
-  )
-
-  if (pkg %in% loadedNamespaces() && !is_available(pkg, version)) {
-    packageStartupMessage(msg)
-  }
-
-  # Always register hook in case pkg is loaded at some
-  # point the future (or, potentially, but less commonly,
-  # unloaded & reloaded)
-  setHook(
-    packageEvent(pkg, "onLoad"),
-    function(...) {
-      if (!is_available(pkg, version)) packageStartupMessage(msg)
-    }
-  )
-}
-
 .onLoad <- function(libname, pkgname) {
   # R's lazy-loading package scheme causes the private seed to be cached in the
   # package itself, making our PRNG completely deterministic. This line resets
@@ -62,9 +13,9 @@ register_upgrade_message <- function(pkg, version) {
 
   # Make sure these methods are available to knitr if shiny is loaded but not
   # attached.
-  register_s3_method("knitr", "knit_print", "reactive")
-  register_s3_method("knitr", "knit_print", "shiny.appobj")
-  register_s3_method("knitr", "knit_print", "shiny.render.function")
+  s3_register("knitr::knit_print", "reactive")
+  s3_register("knitr::knit_print", "shiny.appobj")
+  s3_register("knitr::knit_print", "shiny.render.function")
 
   # Shiny 1.4.0 bumps jQuery 1.x to 3.x, which caused a problem
   # with static-rendering of htmlwidgets, and htmlwidgets 1.5

R/graph.R

@@ -4,7 +4,7 @@
 # @param version The version of the package
 check_suggested <- function(package, version = NULL) {
 
-  if (is_available(package, version)) {
+  if (is_installed(package, version)) {
     return()
   }
 
@@ -115,22 +115,28 @@ check_reactlog <- function() {
 }
 # read reactlog version from description file
 # prevents version mismatch in code and description file
-reactlog_version <- function() {
-  desc <- read.dcf(system.file("DESCRIPTION", package = "shiny", mustWork = TRUE))
-  suggests <- desc[1,"Suggests"][[1]]
-  suggests_pkgs <- strsplit(suggests, "\n")[[1]]
+reactlog_version <- local({
+  version <- NULL
+  function() {
+    if (!is.null(version)) return(version)
 
-  reactlog_info <- suggests_pkgs[grepl("reactlog", suggests_pkgs)]
-  if (length(reactlog_info) == 0) {
-    stop("reactlog can not be found in shiny DESCRIPTION file")
+    desc <- read.dcf(system_file("DESCRIPTION", package = "shiny"))
+    suggests <- desc[1,"Suggests"][[1]]
+    suggests_pkgs <- strsplit(suggests, "\n")[[1]]
+
+    reactlog_info <- suggests_pkgs[grepl("reactlog", suggests_pkgs)]
+    if (length(reactlog_info) == 0) {
+      stop("reactlog can not be found in shiny DESCRIPTION file")
+    }
+
+    reactlog_info <- sub("^[^\\(]*\\(", "", reactlog_info)
+    reactlog_info <- sub("\\)[^\\)]*$", "", reactlog_info)
+    reactlog_info <- sub("^[>= ]*", "", reactlog_info)
+
+    version <<- package_version(reactlog_info)
+    version
   }
-
-  reactlog_info <- sub("^[^\\(]*\\(", "", reactlog_info)
-  reactlog_info <- sub("\\)[^\\)]*$", "", reactlog_info)
-  reactlog_info <- sub("^[>= ]*", "", reactlog_info)
-
-  package_version(reactlog_info)
-}
+})
 
 
 RLog <- R6Class(

R/imageutils.R

@@ -1,19 +1,14 @@
 startPNG <- function(filename, width, height, res, ...) {
-  # shiny.useragg is an experimental option that isn't officially supported or
-  # documented. It's here in the off chance that someone really wants
-  # to use ragg (say, instead of showtext, for custom font rendering).
-  # In the next shiny release, this option will likely be superseded in
-  # favor of a fully customizable graphics device option
-  if ((getOption('shiny.useragg') %||% FALSE) && is_available("ragg")) {
-    pngfun <- ragg::agg_png
+  pngfun <- if ((getOption('shiny.useragg') %||% TRUE) && is_installed("ragg")) {
+    ragg::agg_png
   } else if (capabilities("aqua")) {
     # i.e., png(type = 'quartz')
-    pngfun <- grDevices::png
-  } else if ((getOption('shiny.usecairo') %||% TRUE) && is_available("Cairo")) {
-    pngfun <- Cairo::CairoPNG
+    grDevices::png
+  } else if ((getOption('shiny.usecairo') %||% TRUE) && is_installed("Cairo")) {
+    Cairo::CairoPNG
   } else {
     # i.e., png(type = 'cairo')
-    pngfun <- grDevices::png
+    grDevices::png
   }
 
   args <- rlang::list2(filename=filename, width=width, height=height, res=res, ...)
@@ -57,33 +52,31 @@ startPNG <- function(filename, width, height, res, ...) {
   grDevices::dev.cur()
 }
 
-#' Run a plotting function and save the output as a PNG
+#' Capture a plot as a PNG file.
 #'
-#' This function returns the name of the PNG file that it generates. In
-#' essence, it calls `png()`, then `func()`, then `dev.off()`.
-#' So `func` must be a function that will generate a plot when used this
-#' way.
-#'
-#' For output, it will try to use the following devices, in this order:
-#' quartz (via [grDevices::png()]), then [Cairo::CairoPNG()],
-#' and finally [grDevices::png()]. This is in order of quality of
-#' output. Notably, plain `png` output on Linux and Windows may not
-#' antialias some point shapes, resulting in poor quality output.
-#'
-#' In some cases, `Cairo()` provides output that looks worse than
-#' `png()`. To disable Cairo output for an app, use
-#' `options(shiny.usecairo=FALSE)`.
+#' The PNG graphics device used is determined in the following order:
+#'   * If the ragg package is installed (and the `shiny.useragg` is not
+#'    set to `FALSE`), then use [ragg::agg_png()].
+#'   * If a quartz device is available (i.e., `capabilities("aqua")` is
+#'    `TRUE`), then use `png(type = "quartz")`.
+#'   * If the Cairo package is installed (and the `shiny.usecairo` option
+#'    is not set to `FALSE`), then use [Cairo::CairoPNG()].
+#'   * Otherwise, use [grDevices::png()]. In this case, Linux and Windows
+#'    may not antialias some point shapes, resulting in poor quality output.
 #'
 #' @param func A function that generates a plot.
 #' @param filename The name of the output file. Defaults to a temp file with
 #'   extension `.png`.
 #' @param width Width in pixels.
 #' @param height Height in pixels.
-#' @param res Resolution in pixels per inch. This value is passed to
-#'   [grDevices::png()]. Note that this affects the resolution of PNG rendering in
+#' @param res Resolution in pixels per inch. This value is passed to the
+#'   graphics device. Note that this affects the resolution of PNG rendering in
 #'   R; it won't change the actual ppi of the browser.
-#' @param ... Arguments to be passed through to [grDevices::png()].
-#'   These can be used to set the width, height, background color, etc.
+#' @param ... Arguments to be passed through to the graphics device. These can
+#'   be used to set the width, height, background color, etc.
+#'
+#' @return A path to the newly generated PNG file.
+#'
 #' @export
 plotPNG <- function(func, filename=tempfile(fileext='.png'),
                     width=400, height=400, res=72, ...) {

R/input-date.R

@@ -138,7 +138,8 @@ datePickerDependency <- function(theme) {
     htmlDependency(
       name = "bootstrap-datepicker-js",
       version = version_bs_date_picker,
-      src = c(href = "shared/datepicker"),
+      src = "www/shared/datepicker",
+      package = "shiny",
       script = if (getOption("shiny.minified", TRUE)) "js/bootstrap-datepicker.min.js"
                else                                   "js/bootstrap-datepicker.js",
       # Need to enable noConflict mode. See #1346.
@@ -157,18 +158,19 @@ datePickerCSS <- function(theme) {
     return(htmlDependency(
       name = "bootstrap-datepicker-css",
       version = version_bs_date_picker,
-      src = c(href = "shared/datepicker"),
+      src = "www/shared/datepicker",
+      package = "shiny",
       stylesheet = "css/bootstrap-datepicker3.min.css"
     ))
   }
 
-  scss_file <- system.file(package = "shiny", "www/shared/datepicker/scss/build3.scss")
+  scss_file <- system_file(package = "shiny", "www/shared/datepicker/scss/build3.scss")
 
   bslib::bs_dependency(
     input = sass::sass_file(scss_file),
     theme = theme,
     name = "bootstrap-datepicker",
     version = version_bs_date_picker,
-    cache_key_extra = shinyPackageVersion()
+    cache_key_extra = get_package_version("shiny")
   )
 }

R/input-file.R

@@ -23,7 +23,18 @@
 #' @param buttonLabel The label used on the button. Can be text or an HTML tag
 #'   object.
 #' @param placeholder The text to show before a file has been uploaded.
+#' @param capture What source to use for capturing image, audio or video data.
+#'   This attribute facilitates user access to a device's media capture 
+#'   mechanism, such as a camera, or microphone, from within a file upload 
+#'   control.
 #'
+#'   A value of `user` indicates that the user-facing camera and/or microphone
+#'   should be used. A value of `environment` specifies that the outward-facing
+#'   camera and/or microphone should be used.
+#'
+#'   By default on most phones, this will accept still photos or video. For
+#'   still photos only, also use `accept="image/*"`. For video only, use
+#'   `accept="video/*"`.
 #' @examples
 #' ## Only run examples in interactive R sessions
 #' if (interactive()) {
@@ -73,7 +84,8 @@
 #'
 #' @export
 fileInput <- function(inputId, label, multiple = FALSE, accept = NULL,
-  width = NULL, buttonLabel = "Browse...", placeholder = "No file selected") {
+  width = NULL, buttonLabel = "Browse...", placeholder = "No file selected",
+  capture = NULL) {
 
   restoredValue <- restoreInput(id = inputId, default = NULL)
 
@@ -101,6 +113,9 @@ fileInput <- function(inputId, label, multiple = FALSE, accept = NULL,
   if (length(accept) > 0)
     inputTag$attribs$accept <- paste(accept, collapse=',')
 
+  if (!is.null(capture)) {
+    inputTag$attribs$capture <- capture
+  }
 
   div(class = "form-group shiny-input-container",
     style = css(width = validateCssUnit(width)),

R/input-select.R

@@ -213,14 +213,7 @@ selectizeIt <- function(inputId, select, options, nonempty = FALSE) {
   deps <- list(selectizeDependency())
 
   if ('drag_drop' %in% options$plugins) {
-    deps <- c(
-      deps,
-      list(htmlDependency(
-        'jqueryui', '1.12.1',
-        c(href = 'shared/jqueryui'),
-        script = 'jquery-ui.min.js'
-      ))
-    )
+    deps[[length(deps) + 1]] <- jqueryuiDependency()
   }
 
   # Insert script on same level as <select> tag
@@ -247,7 +240,7 @@ selectizeDependencyFunc <- function(theme) {
     return(selectizeStaticDependency(version_selectize))
   }
 
-  selectizeDir <- system.file(package = "shiny", "www/shared/selectize/")
+  selectizeDir <- system_file(package = "shiny", "www/shared/selectize/")
   bs_version <- bslib::theme_version(theme)
   stylesheet <- file.path(
     selectizeDir, "scss", paste0("selectize.bootstrap", bs_version, ".scss")
@@ -267,15 +260,17 @@ selectizeDependencyFunc <- function(theme) {
     theme = theme,
     name = "selectize",
     version = version_selectize,
-    cache_key_extra = shinyPackageVersion(),
+    cache_key_extra = get_package_version("shiny"),
     .dep_args = list(script = script)
   )
 }
 
 selectizeStaticDependency <- function(version) {
   htmlDependency(
-    "selectize", version,
-    src = c(href = "shared/selectize"),
+    "selectize",
+    version,
+    src = "www/shared/selectize",
+    package = "shiny",
     stylesheet = "css/selectize.bootstrap3.css",
     script = c(
       "js/selectize.min.js",

R/input-slider.R

@@ -205,13 +205,17 @@ ionRangeSliderDependency <- function() {
   list(
     # ion.rangeSlider also needs normalize.css, which is already included in Bootstrap.
     htmlDependency(
-      "ionrangeslider-javascript", version_ion_range_slider,
-      src = c(href = "shared/ionrangeslider"),
+      "ionrangeslider-javascript",
+      version_ion_range_slider,
+      src = "www/shared/ionrangeslider",
+      package = "shiny",
       script = "js/ion.rangeSlider.min.js"
     ),
     htmlDependency(
-      "strftime", version_strftime,
-      src = c(href = "shared/strftime"),
+      "strftime",
+      version_strftime,
+      src = "www/shared/strftime",
+      package = "shiny",
       script = "strftime-min.js"
     ),
     bslib::bs_dependency_defer(ionRangeSliderDependencyCSS)
@@ -223,7 +227,8 @@ ionRangeSliderDependencyCSS <- function(theme) {
     return(htmlDependency(
       "ionrangeslider-css",
       version_ion_range_slider,
-      src = c(href = "shared/ionrangeslider"),
+      src = "www/shared/ionrangeslider",
+      package = "shiny",
       stylesheet = "css/ion.rangeSlider.css"
     ))
   }
@@ -232,13 +237,13 @@ ionRangeSliderDependencyCSS <- function(theme) {
     input = list(
       list(accent = "$component-active-bg"),
       sass::sass_file(
-        system.file(package = "shiny", "www/shared/ionrangeslider/scss/shiny.scss")
+        system_file(package = "shiny", "www/shared/ionrangeslider/scss/shiny.scss")
       )
     ),
     theme = theme,
     name = "ionRangeSlider",
     version = version_ion_range_slider,
-    cache_key_extra = shinyPackageVersion()
+    cache_key_extra = get_package_version("shiny")
   )
 }
 

R/input-utils.R

@@ -41,7 +41,7 @@ normalizeChoicesArgs <- function(choices, choiceNames, choiceValues,
     if (length(choiceNames) != length(choiceValues)) {
       stop("`choiceNames` and `choiceValues` must have the same length.")
     }
-    if (anyNamed(choiceNames) || anyNamed(choiceValues)) {
+    if (any_named(choiceNames) || any_named(choiceValues)) {
       stop("`choiceNames` and `choiceValues` must not be named.")
     }
   } else {

R/jqueryui.R

@@ -79,8 +79,8 @@ absolutePanel <- function(...,
   if (isTRUE(draggable)) {
     divTag <- tagAppendAttributes(divTag, class='draggable')
     return(tagList(
-      singleton(tags$head(tags$script(src='shared/jqueryui/jquery-ui.min.js'))),
       divTag,
+      jqueryuiDependency(),
       tags$script('$(".draggable").draggable();')
     ))
   } else {
@@ -99,3 +99,14 @@ fixedPanel <- function(...,
                 width=width, height=height, draggable=draggable, cursor=match.arg(cursor),
                 fixed=TRUE)
 }
+
+
+jqueryuiDependency <- function() {
+  htmlDependency(
+    'jqueryui',
+    '1.12.1',
+    src = 'www/shared/jqueryui',
+    package = 'shiny',
+    script = 'jquery-ui.min.js'
+  )
+}

R/knitr.R

@@ -63,7 +63,7 @@ knit_print.shiny.appobj <- function(x, ...) {
 #' @param inline Whether the object is printed inline.
 knit_print.shiny.render.function <- function(x, ..., inline = FALSE) {
   x <- htmltools::as.tags(x, inline = inline)
-  output <- knitr::knit_print(tagList(x))
+  output <- knitr::knit_print(tagList(x), ..., inline = inline)
   attr(output, "knit_cacheable") <- FALSE
   attr(output, "knit_meta") <- append(attr(output, "knit_meta"),
                                       shiny_rmd_warning())
@@ -77,5 +77,5 @@ knit_print.reactive <- function(x, ..., inline = FALSE) {
   renderFunc <- if (inline) renderText else renderPrint
   knitr::knit_print(renderFunc({
     x()
-  }), inline = inline)
+  }), ..., inline = inline)
 }

R/middleware.R

@@ -348,7 +348,7 @@ HandlerManager <- R6Class("HandlerManager",
                   httpResponse(status = 500L,
                     content_type = "text/html; charset=UTF-8",
                     content = as.character(htmltools::htmlTemplate(
-                      system.file("template", "error.html", package = "shiny"),
+                      system_file("template", "error.html", package = "shiny"),
                       message = conditionMessage(err)
                     ))
                   )

R/mock-session.R

@@ -1,5 +1,5 @@
 # Promise helpers taken from:
-#   https://github.com/rstudio/promises/blob/master/tests/testthat/common.R
+#   https://github.com/rstudio/promises/blob/main/tests/testthat/common.R
 # Block until all pending later tasks have executed
 wait_for_it <- function() {
   while (!later::loop_empty()) {

R/reactives.R

@@ -1203,7 +1203,7 @@ Observer <- R6Class(
             # validation = function(e) NULL,
             # shiny.output.cancel = function(e) NULL
 
-            if (inherits(e, "shiny.silent.error")) {
+            if (cnd_inherits(e, "shiny.silent.error")) {
               return()
             }
 
@@ -2472,11 +2472,11 @@ debounce <- function(r, millis, priority = 100, domain = getDefaultReactiveDomai
 
       # Ensure r() is called only after setting firstRun to FALSE since r()
       # may throw an error
-      r()
+      try(r(), silent = TRUE)
       return()
     }
     # This ensures r() is still tracked after firstRun
-    r()
+    try(r(), silent = TRUE)
 
     # The value (or possibly millis) changed. Start or reset the timer.
     v$when <- getDomainTimeMs(domain) + millis()
@@ -2509,7 +2509,7 @@ debounce <- function(r, millis, priority = 100, domain = getDefaultReactiveDomai
   # commenting it out and studying the unit test failure that results.
   primer <- observe({
     primer$destroy()
-    er()
+    try(er(), silent = TRUE)
   }, label = "debounce primer", domain = domain, priority = priority)
 
   er
@@ -2551,7 +2551,7 @@ throttle <- function(r, millis, priority = 100, domain = getDefaultReactiveDomai
   }
 
   # Responsible for tracking when f() changes.
-  observeEvent(r(), {
+  observeEvent(try(r(), silent = TRUE), {
     if (v$pending) {
       # In a blackout period and someone already scheduled; do nothing
     } else if (blackoutMillisLeft() > 0) {

R/reexports.R

@@ -1,6 +1,6 @@
 ####
-# Generated by `./tools/updateReexports.R`: do not edit by hand
-# Please call `source('tools/updateReexports.R') from the root folder to update`
+# Generated by `./tools/documentation/updateReexports.R`: do not edit by hand
+# Please call `source('tools/documentation/updateReexports.R')` from the root folder to update`
 ####
 
 
@@ -90,17 +90,20 @@ htmltools::em
 #' @export
 htmltools::hr
 
-
-# htmltools tag.Rd -------------------------------------------------------------
-
 #' @importFrom htmltools tag
 #' @export
 htmltools::tag
 
+
+# htmltools tagList.Rd ---------------------------------------------------------
+
 #' @importFrom htmltools tagList
 #' @export
 htmltools::tagList
 
+
+# htmltools tagAppendAttributes.Rd ---------------------------------------------
+
 #' @importFrom htmltools tagAppendAttributes
 #' @export
 htmltools::tagAppendAttributes
@@ -113,6 +116,9 @@ htmltools::tagHasAttribute
 #' @export
 htmltools::tagGetAttribute
 
+
+# htmltools tagAppendChild.Rd --------------------------------------------------
+
 #' @importFrom htmltools tagAppendChild
 #' @export
 htmltools::tagAppendChild

R/render-cached-plot.R

@@ -181,7 +181,7 @@
 #' # At the top of app.R, this set the application-scoped cache to be a disk
 #' # cache that can be shared among multiple concurrent R processes, and is
 #' # deleted when the system reboots.
-#' shinyOptions(cache = cachem::cache_disk(file.path(dirname(tempdir()), "myapp-cache"))
+#' shinyOptions(cache = cachem::cache_disk(file.path(dirname(tempdir()), "myapp-cache")))
 #'
 #' # At the top of app.R, this set the application-scoped cache to be a disk
 #' # cache that can be shared among multiple concurrent R processes, and

R/render-plot.R

@@ -34,7 +34,7 @@
 #'   When rendering an inline plot, you must provide numeric values (in pixels)
 #'   to both \code{width} and \code{height}.
 #' @param res Resolution of resulting plot, in pixels per inch. This value is
-#'   passed to [grDevices::png()]. Note that this affects the resolution of PNG
+#'   passed to [plotPNG()]. Note that this affects the resolution of PNG
 #'   rendering in R; it won't change the actual ppi of the browser.
 #' @param alt Alternate text for the HTML `<img>` tag if it cannot be displayed
 #'   or viewed (i.e., the user uses a screen reader). In addition to a character
@@ -44,7 +44,7 @@
 #'   ggplot objects; for other plots, `NA` results in alt text of "Plot object".
 #'   `NULL` or `""` is not recommended because those should be limited to
 #'   decorative images.
-#' @param ... Arguments to be passed through to [grDevices::png()].
+#' @param ... Arguments to be passed through to [plotPNG()].
 #'   These can be used to set the width, height, background color, etc.
 #' @inheritParams renderUI
 #' @param execOnResize If `FALSE` (the default), then when a plot is
@@ -612,7 +612,7 @@ getGgplotCoordmap <- function(p, width, height, res) {
 find_panel_info <- function(b) {
   # Structure of ggplot objects changed after 2.1.0. After 2.2.1, there was a
   # an API for extracting the necessary information.
-  ggplot_ver <- utils::packageVersion("ggplot2")
+  ggplot_ver <- get_package_version("ggplot2")
 
   if (ggplot_ver > "2.2.1") {
     find_panel_info_api(b)

R/run-url.R

@@ -23,10 +23,10 @@
 #' @examples
 #' ## Only run this example in interactive R sessions
 #' if (interactive()) {
-#'   runUrl('https://github.com/rstudio/shiny_example/archive/master.tar.gz')
+#'   runUrl('https://github.com/rstudio/shiny_example/archive/main.tar.gz')
 #'
 #'   # Can run an app from a subdirectory in the archive
-#'   runUrl("https://github.com/rstudio/shiny_example/archive/master.zip",
+#'   runUrl("https://github.com/rstudio/shiny_example/archive/main.zip",
 #'     subdir = "inst/shinyapp/")
 #' }
 runUrl <- function(url, filetype = NULL, subdir = NULL, destdir = NULL, ...) {
@@ -121,7 +121,8 @@ runGist <- function(gist, destdir = NULL, ...) {
 #' @param username GitHub username. If `repo` is of the form
 #'   `"username/repo"`, `username` will be taken from `repo`.
 #' @param ref Desired git reference. Could be a commit, tag, or branch name.
-#'   Defaults to `"master"`.
+#'   Defaults to `"HEAD"`, which means the default branch on GitHub, typically
+#'   `"main"` or `"master"`.
 #' @export
 #' @examples
 #' ## Only run this example in interactive R sessions
@@ -133,7 +134,7 @@ runGist <- function(gist, destdir = NULL, ...) {
 #'   runGitHub("shiny_example", "rstudio", subdir = "inst/shinyapp/")
 #' }
 runGitHub <- function(repo, username = getOption("github.user"),
-                      ref = "master", subdir = NULL, destdir = NULL, ...) {
+                      ref = "HEAD", subdir = NULL, destdir = NULL, ...) {
 
   if (grepl('/', repo)) {
     res <- strsplit(repo, '/')[[1]]

R/runapp.R

@@ -28,7 +28,7 @@
 #'   ports will be tried.
 #' @param launch.browser If true, the system's default web browser will be
 #'   launched automatically after the app is started. Defaults to true in
-#'   interactive sessions only. This value of this parameter can also be a
+#'   interactive sessions only. The value of this parameter can also be a
 #'   function to call with the application's URL.
 #' @param host The IPv4 address that the application should listen on. Defaults
 #'   to the `shiny.host` option, if set, or `"127.0.0.1"` if not. See
@@ -467,7 +467,7 @@ runExample <- function(example=NA,
                        launch.browser = getOption('shiny.launch.browser', interactive()),
                        host=getOption('shiny.host', '127.0.0.1'),
                        display.mode=c("auto", "normal", "showcase")) {
-  examplesDir <- system.file('examples', package='shiny')
+  examplesDir <- system_file('examples', package='shiny')
   dir <- resolve(examplesDir, example)
   if (is.null(dir)) {
     if (is.na(example)) {

R/server-input-handlers.R

@@ -41,9 +41,9 @@ inputHandlers <- Map$new()
 #' })
 #'
 #' ## On the Javascript side, the associated input binding must have a corresponding getType method:
-#' getType: function(el) {
-#'   return "mypackage.validint";
-#' }
+#' # getType: function(el) {
+#' #   return "mypackage.validint";
+#' # }
 #'
 #' }
 #' @seealso [removeInputHandler()] [applyInputHandlers()]
@@ -181,7 +181,7 @@ registerInputHandler("shiny.datetime", function(val, ...){
 
 registerInputHandler("shiny.action", function(val, shinysession, name) {
   # mark up the action button value with a special class so we can recognize it later
-  class(val) <- c(class(val), "shinyActionButtonValue")
+  class(val) <- c("shinyActionButtonValue", class(val))
   val
 })
 

R/server.R

@@ -49,7 +49,7 @@ registerClient <- function(client) {
 #' optional `session` parameter, which is used when greater control is
 #' needed.
 #'
-#' See the [tutorial](https://rstudio.github.io/shiny/tutorial/) for more
+#' See the [tutorial](https://shiny.rstudio.com/tutorial/) for more
 #' on how to write a server function.
 #'
 #' @param func The server function for this application. See the details section
@@ -128,7 +128,7 @@ createAppHandlers <- function(httpHandlers, serverFuncSource) {
   appvars <- new.env()
   appvars$server <- NULL
 
-  sys.www.root <- system.file('www', package='shiny')
+  sys.www.root <- system_file('www', package='shiny')
 
   # This value, if non-NULL, must be present on all HTTP and WebSocket
   # requests as the Shiny-Shared-Secret header or else access will be
@@ -331,7 +331,7 @@ argsForServerFunc <- function(serverFunc, session) {
 getEffectiveBody <- function(func) {
   if (is.null(func))
     NULL
-  else if (isS4(func) && class(func) == "functionWithTrace")
+  else if (isS4(func) && inherits(func, "functionWithTrace"))
     body(func@original)
   else
     body(func)
@@ -385,7 +385,7 @@ startApp <- function(appObj, port, host, quiet) {
     list(
       # Always handle /session URLs dynamically, even if / is a static path.
       "session" = excludeStaticPath(),
-      "shared" = system.file(package = "shiny", "www", "shared")
+      "shared" = system_file(package = "shiny", "www", "shared")
     ),
     .globals$resourcePaths
   )

R/shiny-options.R

@@ -94,6 +94,10 @@ getShinyOption <- function(name, default = NULL) {
 #'   numbers to JSON format to send to the client web browser.}
 #' \item{shiny.launch.browser (defaults to `interactive()`)}{A boolean which controls the default behavior
 #'   when an app is run. See [runApp()] for more information.}
+#' \item{shiny.mathjax.url (defaults to `"https://mathjax.rstudio.com/latest/MathJax.js"`)}{
+#'   The URL that should be used to load MathJax, via [withMathJax()].}
+#' \item{shiny.mathjax.config (defaults to `"config=TeX-AMS-MML_HTMLorMML"`)}{The querystring
+#'   used to load MathJax, via [withMathJax()].}
 #' \item{shiny.maxRequestSize (defaults to 5MB)}{This is a number which specifies the maximum
 #'   web request size, which serves as a size limit for file uploads.}
 #' \item{shiny.minified (defaults to `TRUE`)}{By default
@@ -125,6 +129,9 @@ getShinyOption <- function(name, default = NULL) {
 #'   console.}
 #' \item{shiny.testmode (defaults to `FALSE`)}{If `TRUE`, then various features for testing Shiny
 #'   applications are enabled.}
+#' \item{shiny.snapshotsortc (defaults to `FALSE`)}{If `TRUE`, test snapshot keys
+#'   for \pkg{shinytest} will be sorted consistently using the C locale.  Snapshots
+#'   retrieved by \pkg{shinytest2} will always sort using the C locale.}
 #' \item{shiny.trace (defaults to `FALSE`)}{Print messages sent between the R server and the web
 #'   browser client to the R console. This is useful for debugging. Possible
 #'   values are `"send"` (only print messages sent to the client),
@@ -133,9 +140,10 @@ getShinyOption <- function(name, default = NULL) {
 #'   messages).}
 #' \item{shiny.autoload.r (defaults to `TRUE`)}{If `TRUE`, then the R/
 #'   of a shiny app will automatically be sourced.}
-#' \item{shiny.usecairo (defaults to `TRUE`)}{This is used to disable graphical rendering by the
-#'   Cairo package, if it is installed. See [plotPNG()] for more
-#'   information.}
+#' \item{shiny.useragg (defaults to `TRUE`)}{Set to `FALSE` to prevent PNG rendering via the
+#'   ragg package. See [plotPNG()] for more information.}
+#' \item{shiny.usecairo (defaults to `TRUE`)}{Set to `FALSE` to prevent PNG rendering via the
+#'   Cairo package. See [plotPNG()] for more information.}
 #' \item{shiny.devmode (defaults to `NULL`)}{Option to enable Shiny Developer Mode. When set,
 #'   different default `getOption(key)` values will be returned. See [devmode()] for more details.}
 ### Not documenting as 'shiny.devmode.verbose' is for niche use only

R/shiny.R

@@ -185,9 +185,11 @@ workerId <- local({
 #'   session is actually connected.
 #' }
 #' \item{request}{
-#'   An environment that implements the Rook specification for HTTP requests.
-#'   This is the request that was used to initiate the websocket connection
-#'   (as opposed to the request that downloaded the web page for the app).
+#'   An environment that implements the [Rook
+#'   specification](https://github.com/jeffreyhorner/Rook#the-environment) for
+#'   HTTP requests. This is the request that was used to initiate the websocket
+#'   connection (as opposed to the request that downloaded the web page for the
+#'   app).
 #' }
 #' \item{userData}{
 #'   An environment for app authors and module/package authors to store whatever
@@ -403,7 +405,7 @@ ShinySession <- R6Class(
     sendMessage = function(...) {
       # This function is a wrapper for $write
       msg <- list(...)
-      if (anyUnnamed(msg)) {
+      if (any_unnamed(msg)) {
         stop("All arguments to sendMessage must be named.")
       }
       private$write(toJSON(msg))
@@ -478,6 +480,35 @@ ShinySession <- R6Class(
           # "json" unless requested otherwise. The only other valid value is
           # "rds".
           format <- params$format %||% "json"
+          # Machines can test their snapshot under different locales.
+          # R CMD check runs under the `C` locale.
+          # However, before this parameter, existing snapshots were most likely not
+          #   under the `C` locale is would cause failures. This parameter allows
+          #   users to opt-in to the `C` locale.
+          # From ?sort:
+          #   However, there are some caveats with the radix sort:
+          #     If ‘x’ is a ‘character’ vector, all elements must share the
+          #   same encoding. Only UTF-8 (including ASCII) and Latin-1
+          #   encodings are supported. Collation always follows the "C"
+          #   locale.
+          # {shinytest2} will always set `sortC=1`
+          # {shinytest} does not have `sortC` functionality.
+          #    Users should set `options(shiny.snapshotsortc = TRUE)` within their app.
+          # The sortingMethod should always be `radix` going forward.
+          sortMethod <-
+            if (!is.null(params$sortC)) {
+              if (params$sortC != "1") {
+                stop("The `sortC` parameter can only be `1` or not supplied")
+              }
+              "radix"
+            } else {
+              # Allow users to set an option for {shinytest2}.
+              if (isTRUE(getShinyOption("snapshotsortc", default = FALSE))) {
+                "radix"
+              } else {
+                "auto"
+              }
+            }
 
           values <- list()
 
@@ -520,7 +551,7 @@ ShinySession <- R6Class(
               }
             )
 
-            values$input <- sortByName(values$input)
+            values$input <- sortByName(values$input, method = sortMethod)
           }
 
           if (!is.null(params$output)) {
@@ -548,7 +579,7 @@ ShinySession <- R6Class(
               }
             )
 
-            values$output <- sortByName(values$output)
+            values$output <- sortByName(values$output, method = sortMethod)
           }
 
           if (!is.null(params$export)) {
@@ -569,7 +600,7 @@ ShinySession <- R6Class(
               )
             }
 
-            values$export <- sortByName(values$export)
+            values$export <- sortByName(values$export, method = sortMethod)
           }
 
           # Make sure input, output, and export are all named lists (at this
@@ -825,7 +856,7 @@ ShinySession <- R6Class(
             dots <- eval(substitute(alist(...)))
           }
 
-          if (anyUnnamed(dots))
+          if (any_unnamed(dots))
             stop("exportTestValues: all arguments must be named.")
 
           names(dots) <- ns(names(dots))
@@ -913,7 +944,7 @@ ShinySession <- R6Class(
 
         # Copy `values` from scopeState to state, adding namespace
         if (length(scopeState$values) != 0) {
-          if (anyUnnamed(scopeState$values)) {
+          if (any_unnamed(scopeState$values)) {
             stop("All scope values in must be named.")
           }
 
@@ -1114,7 +1145,12 @@ ShinySession <- R6Class(
                   structure(list(), class = "try-error", condition = cond)
                 } else if (inherits(cond, "shiny.output.cancel")) {
                   structure(list(), class = "cancel-output")
-                } else if (inherits(cond, "shiny.silent.error")) {
+                } else if (cnd_inherits(cond, "shiny.silent.error")) {
+                  # The error condition might have been chained by
+                  # foreign code, e.g. dplyr. Find the original error.
+                  while (!inherits(cond, "shiny.silent.error")) {
+                    cond <- cond$parent
+                  }
                   # Don't let shiny.silent.error go through the normal stop
                   # path of try, because we don't want it to print. But we
                   # do want to try to return the same looking result so that
@@ -1701,7 +1737,7 @@ ShinySession <- R6Class(
         dots <- eval(substitute(alist(...)))
       }
 
-      if (anyUnnamed(dots))
+      if (any_unnamed(dots))
         stop("exportTestValues: all arguments must be named.")
 
       # Create a named list where each item is a list with an expression and
@@ -1714,7 +1750,7 @@ ShinySession <- R6Class(
     },
 
     getTestSnapshotUrl = function(input = TRUE, output = TRUE, export = TRUE,
-                                  format = "json") {
+                                  format = "json", sortC = FALSE) {
       reqString <- function(group, value) {
         if (isTRUE(value))
           paste0(group, "=1")
@@ -1728,6 +1764,7 @@ ShinySession <- R6Class(
         reqString("input", input),
         reqString("output", output),
         reqString("export", export),
+        reqString("sortC", sortC),
         paste0("format=", format),
         sep = "&"
       )

R/shinyapp.R

@@ -193,7 +193,7 @@ shinyAppDir_serverR <- function(appDir, options=list()) {
     staticPaths <- list()
   }
 
-  fallbackWWWDir <- system.file("www-dir", package = "shiny")
+  fallbackWWWDir <- system_file("www-dir", package = "shiny")
 
   serverSource <- cachedFuncWithFile(appDir, "server.R", case.sensitive = FALSE,
     function(serverR) {
@@ -286,7 +286,7 @@ shinyAppDir_serverR <- function(appDir, options=list()) {
 #
 # The return value is a function that halts monitoring when called.
 initAutoReloadMonitor <- function(dir) {
-  if (!getOption("shiny.autoreload", FALSE)) {
+  if (!get_devmode_option("shiny.autoreload", FALSE)) {
     return(function(){})
   }
 
@@ -339,7 +339,7 @@ initAutoReloadMonitor <- function(dir) {
 #' @param appDir The application directory. If `appDir` is `NULL` or
 #'   not supplied, the nearest enclosing directory that is a Shiny app, starting
 #'   with the current directory, is used.
-#' @param renv The environmeny in which the files in the `R/` directory should
+#' @param renv The environment in which the files in the `R/` directory should
 #'   be evaluated.
 #' @param globalrenv The environment in which `global.R` should be evaluated. If
 #'   `NULL`, `global.R` will not be evaluated at all.
@@ -455,7 +455,7 @@ shinyAppDir_appR <- function(fileName, appDir, options=list())
     staticPaths <- list()
   }
 
-  fallbackWWWDir <- system.file("www-dir", package = "shiny")
+  fallbackWWWDir <- system_file("www-dir", package = "shiny")
 
   oldwd <- NULL
   monitorHandle <- NULL

R/shinyui.R

@@ -14,7 +14,11 @@ NULL
 #' # now we can just write "static" content without withMathJax()
 #' div("more math here $$\\sqrt{2}$$")
 withMathJax <- function(...) {
-  path <- 'https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'
+  path <- paste0(
+    getOption("shiny.mathjax.url", "https://mathjax.rstudio.com/latest/MathJax.js"),
+    "?",
+    getOption("shiny.mathjax.config", "config=TeX-AMS-MML_HTMLorMML")
+  )
   tagList(
     tags$head(
       singleton(tags$script(src = path, type = 'text/javascript'))
@@ -39,7 +43,7 @@ renderPage <- function(ui, showcase=0, testMode=FALSE) {
 
     # Put the body into the default template
     ui <- htmlTemplate(
-      system.file("template", "default.html", package = "shiny"),
+      system_file("template", "default.html", package = "shiny"),
       lang = lang,
       body = ui,
       # this template is a complete HTML document
@@ -55,8 +59,14 @@ renderPage <- function(ui, showcase=0, testMode=FALSE) {
   if (testMode) {
     # Add code injection listener if in test mode
     shiny_deps[[length(shiny_deps) + 1]] <-
-      htmlDependency("shiny-testmode", shinyPackageVersion(),
-                     c(href="shared"), script = "shiny-testmode.js")
+      htmlDependency(
+        "shiny-testmode",
+        get_package_version("shiny"),
+        src = "www/shared",
+        package = "shiny",
+        script = "shiny-testmode.js",
+        all_files = FALSE
+      )
   }
 
   html <- renderDocument(ui, shiny_deps, processDep = createWebDependency)
@@ -68,23 +78,19 @@ jqueryDependency <- function() {
   if (version == 3) {
     return(htmlDependency(
       "jquery", version_jquery,
-      src = c(
-        href = "shared",
-        file = "www/shared"
-      ),
+      src = "www/shared",
       package = "shiny",
-      script = "jquery.min.js"
+      script = "jquery.min.js",
+      all_files = FALSE
     ))
   }
   if (version == 1) {
     return(htmlDependency(
       "jquery", "1.12.4",
-      src = c(
-        href = "shared/legacy",
-        file = "www/shared/legacy"
-      ),
+      src = "www/shared/legacy",
       package = "shiny",
-      script = "jquery.min.js"
+      script = "jquery.min.js",
+      all_files = FALSE
     ))
   }
   stop("Unsupported version of jQuery: ", version)
@@ -95,8 +101,9 @@ shinyDependencies <- function() {
     bslib::bs_dependency_defer(shinyDependencyCSS),
     htmlDependency(
       name = "shiny-javascript",
-      version = shinyPackageVersion(),
-      src = c(href = "shared"),
+      version = get_package_version("shiny"),
+      src = "www/shared",
+      package = "shiny",
       script =
         if (isTRUE(
           get_devmode_option(
@@ -106,24 +113,27 @@ shinyDependencies <- function() {
         ))
           "shiny.min.js"
         else
-          "shiny.js"
+          "shiny.js",
+      all_files = FALSE
     )
   )
 }
 
 shinyDependencyCSS <- function(theme) {
-  version <- shinyPackageVersion()
+  version <- get_package_version("shiny")
 
   if (!is_bs_theme(theme)) {
     return(htmlDependency(
       name = "shiny-css",
       version = version,
-      src = c(href = "shared"),
-      stylesheet = "shiny.min.css"
+      src = "www/shared",
+      package = "shiny",
+      stylesheet = "shiny.min.css",
+      all_files = FALSE
     ))
   }
 
-  scss_home <- system.file("www/shared/shiny_scss", package = "shiny")
+  scss_home <- system_file("www/shared/shiny_scss", package = "shiny")
   scss_files <- file.path(scss_home, c("bootstrap.scss", "shiny.scss"))
   scss_files <- lapply(scss_files, sass::sass_file)
 

R/shinywrappers.R

@@ -778,9 +778,9 @@ renderUI <- function(expr, env = parent.frame(), quoted = FALSE,
 #'   function.)
 #' @param contentType A string of the download's
 #'   [content type](https://en.wikipedia.org/wiki/Internet_media_type), for
-#'   example `"text/csv"` or `"image/png"`. If `NULL` or
-#'   `NA`, the content type will be guessed based on the filename
-#'   extension, or `application/octet-stream` if the extension is unknown.
+#'   example `"text/csv"` or `"image/png"`. If `NULL`, the content type 
+#'   will be guessed based on the filename extension, or 
+#'   `application/octet-stream` if the extension is unknown.
 #' @param outputArgs A list of arguments to be passed through to the implicit
 #'   call to [downloadButton()] when `downloadHandler` is used
 #'   in an interactive R Markdown document.
@@ -810,7 +810,7 @@ renderUI <- function(expr, env = parent.frame(), quoted = FALSE,
 #' shinyApp(ui, server)
 #' }
 #' @export
-downloadHandler <- function(filename, content, contentType=NA, outputArgs=list()) {
+downloadHandler <- function(filename, content, contentType=NULL, outputArgs=list()) {
   renderFunc <- function(shinysession, name, ...) {
     shinysession$registerDownload(name, filename, contentType, content)
   }
@@ -822,7 +822,9 @@ downloadHandler <- function(filename, content, contentType=NA, outputArgs=list()
 #' Table output with the JavaScript DataTables library
 #'
 #' @description
-#' `r lifecycle::badge("superseded")` Please use [`DT::renderDataTable()`]. (Shiny 0.11.1)
+#' `r lifecycle::badge("superseded")` Please use
+#' \href{https://rstudio.github.io/DT/shiny.html}{\code{DT::renderDataTable()}}.
+#' (Shiny 0.11.1)
 #'
 #' Makes a reactive version of the given function that returns a data frame (or
 #' matrix), which will be rendered with the [DataTables](https://datatables.net)
@@ -951,7 +953,7 @@ renderDataTable <- function(expr, options = NULL, searchDelay = 500,
 DT10Names <- function() {
   rbind(
     utils::read.table(
-      system.file('www/shared/datatables/upgrade1.10.txt', package = 'shiny'),
+      system_file('www/shared/datatables/upgrade1.10.txt', package = 'shiny'),
       stringsAsFactors = FALSE
     ),
     c('aoColumns', 'Removed')  # looks like an omission on the upgrade guide

R/showcase.R

@@ -32,26 +32,40 @@ licenseLink <- function(licenseName) {
 showcaseHead <- function() {
 
   deps  <- list(
-    htmlDependency("jqueryui", "1.12.1", c(href="shared/jqueryui"),
-      script = "jquery-ui.min.js"),
-    htmlDependency("showdown", "0.3.1", c(href="shared/showdown/compressed"),
-      script = "showdown.js"),
-    htmlDependency("highlight.js", "6.2", c(href="shared/highlight"),
-      script = "highlight.pack.js")
+    jqueryuiDependency(),
+    htmlDependency(
+      "showdown",
+      "0.3.1",
+      src = "www/shared/showdown/compressed",
+      package="shiny",
+      script = "showdown.js"
+    ),
+    htmlDependency(
+      "highlight.js",
+      "6.2",
+      src = "www/shared/highlight",
+      package="shiny",
+      script = "highlight.pack.js",
+      stylesheet = "rstudio.css"
+    ),
+    htmlDependency(
+      "showcase",
+      "0.1.0",
+      src = "www/shared",
+      package = "shiny",
+      script = "shiny-showcase.js",
+      stylesheet = "shiny-showcase.css",
+      all_files = FALSE
+    )
   )
 
   mdfile <- file.path.ci(getwd(), 'Readme.md')
-  html <- with(tags, tagList(
-    script(src="shared/shiny-showcase.js"),
-    link(rel="stylesheet", type="text/css",
-         href="shared/highlight/rstudio.css"),
-    link(rel="stylesheet", type="text/css",
-         href="shared/shiny-showcase.css"),
+  html <- tagList(
     if (file.exists(mdfile))
-      script(type="text/markdown", id="showcase-markdown-content",
+      tags$script(type="text/markdown", id="showcase-markdown-content",
         paste(readUTF8(mdfile), collapse="\n"))
     else ""
-  ))
+  )
 
   return(attachDependencies(html, deps))
 }

R/staticimports.R

@@ -0,0 +1,216 @@
+# Generated by staticimports; do not edit by hand.
+# ======================================================================
+# Imported from pkg:staticimports
+# ======================================================================
+
+# Given a vector, return TRUE if any elements are named, FALSE otherwise.
+# For zero-length vectors, always return FALSE.
+any_named <- function(x) {
+  if (length(x) == 0) return(FALSE)
+  nms <- names(x)
+  !is.null(nms) && any(nzchar(nms))
+}
+
+# Given a vector, return TRUE if any elements are unnamed, FALSE otherwise.
+# For zero-length vectors, always return FALSE.
+any_unnamed <- function(x) {
+  if (length(x) == 0) return(FALSE)
+  nms <- names(x)
+  is.null(nms) || !all(nzchar(nms))
+}
+
+# Borrowed from pkgload:::dev_meta, with some modifications.
+# Returns TRUE if `pkg` was loaded with `devtools::load_all()`.
+devtools_loaded <- function(pkg) {
+  ns <- .getNamespace(pkg)
+  if (is.null(ns) || is.null(ns$.__DEVTOOLS__)) {
+    return(FALSE)
+  }
+  TRUE
+}
+
+get_package_version <- function(pkg) {
+  # `utils::packageVersion()` can be slow, so first try the fast path of
+  # checking if the package is already loaded.
+  ns <- .getNamespace(pkg)
+  if (is.null(ns)) {
+    utils::packageVersion(pkg)
+  } else {
+    as.package_version(ns$.__NAMESPACE__.$spec[["version"]])
+  }
+}
+
+is_installed <- function(pkg, version = NULL) {
+  installed <- isNamespaceLoaded(pkg) || nzchar(system_file_cached(package = pkg))
+  if (is.null(version)) {
+    return(installed)
+  }
+  installed && isTRUE(get_package_version(pkg) >= version)
+}
+
+register_upgrade_message <- function(pkg, version, error = FALSE) {
+
+  msg <- sprintf(
+    "This version of '%s' is designed to work with '%s' >= %s.
+    Please upgrade via install.packages('%s').",
+    environmentName(environment(register_upgrade_message)),
+    pkg, version, pkg
+  )
+
+  cond <- if (error) stop else packageStartupMessage
+
+  if (pkg %in% loadedNamespaces() && !is_installed(pkg, version)) {
+    cond(msg)
+  }
+
+  # Always register hook in case pkg is loaded at some
+  # point the future (or, potentially, but less commonly,
+  # unloaded & reloaded)
+  setHook(
+    packageEvent(pkg, "onLoad"),
+    function(...) {
+      if (!is_installed(pkg, version)) cond(msg)
+    }
+  )
+}
+
+# Simplified version rlang:::s3_register() that just uses
+# warning() instead of rlang::warn() when registration fails
+# https://github.com/r-lib/rlang/blob/main/R/compat-s3-register.R
+s3_register <- function(generic, class, method = NULL) {
+  stopifnot(is.character(generic), length(generic) == 1)
+  stopifnot(is.character(class), length(class) == 1)
+
+  pieces <- strsplit(generic, "::")[[1]]
+  stopifnot(length(pieces) == 2)
+  package <- pieces[[1]]
+  generic <- pieces[[2]]
+
+  caller <- parent.frame()
+
+  get_method_env <- function() {
+    top <- topenv(caller)
+    if (isNamespace(top)) {
+      asNamespace(environmentName(top))
+    } else {
+      caller
+    }
+  }
+  get_method <- function(method, env) {
+    if (is.null(method)) {
+      get(paste0(generic, ".", class), envir = get_method_env())
+    } else {
+      method
+    }
+  }
+
+  register <- function(...) {
+    envir <- asNamespace(package)
+
+    # Refresh the method each time, it might have been updated by
+    # `devtools::load_all()`
+    method_fn <- get_method(method)
+    stopifnot(is.function(method_fn))
+
+    # Only register if generic can be accessed
+    if (exists(generic, envir)) {
+      registerS3method(generic, class, method_fn, envir = envir)
+    } else {
+      warning(
+        "Can't find generic `", generic, "` in package ", package,
+        " register S3 method. Do you need to update ", package,
+        " to the latest version?", call. = FALSE
+      )
+    }
+  }
+
+  # Always register hook in case package is later unloaded & reloaded
+  setHook(packageEvent(package, "onLoad"), function(...) {
+    register()
+  })
+
+  # Avoid registration failures during loading (pkgload or regular).
+  # Check that environment is locked because the registering package
+  # might be a dependency of the package that exports the generic. In
+  # that case, the exports (and the generic) might not be populated
+  # yet (#1225).
+  if (isNamespaceLoaded(package) && environmentIsLocked(asNamespace(package))) {
+    register()
+  }
+
+  invisible()
+}
+
+# Borrowed from pkgload::shim_system.file, with some modifications. This behaves
+# like `system.file()`, except that (1) for packages loaded with
+# `devtools::load_all()`, it will return the path to files in the package's
+# inst/ directory, and (2) for other packages, the directory lookup is cached.
+# Also, to keep the implementation simple, it doesn't support specification of
+# lib.loc or mustWork.
+system_file <- function(..., package = "base") {
+  if (!devtools_loaded(package))  {
+    return(system_file_cached(..., package = package))
+  }
+
+  if (!is.null(names(list(...)))) {
+    stop("All arguments other than `package` must be unnamed.")
+  }
+
+  # If package was loaded with devtools (the package loaded with load_all),
+  # also search for files under inst/, and don't cache the results (it seems
+  # more likely that the package path will change during the development
+  # process)
+  pkg_path <- find.package(package)
+
+  # First look in inst/
+  files_inst <- file.path(pkg_path, "inst", ...)
+  present_inst <- file.exists(files_inst)
+
+  # For any files that weren't present in inst/, look in the base path
+  files_top <- file.path(pkg_path, ...)
+  present_top <- file.exists(files_top)
+
+  # Merge them together. Here are the different possible conditions, and the
+  # desired result. NULL means to drop that element from the result.
+  #
+  # files_inst:   /inst/A  /inst/B  /inst/C  /inst/D
+  # present_inst:    T        T        F        F
+  # files_top:      /A       /B       /C       /D
+  # present_top:     T        F        T        F
+  # result:       /inst/A  /inst/B    /C       NULL
+  #
+  files <- files_top
+  files[present_inst] <- files_inst[present_inst]
+  # Drop cases where not present in either location
+  files <- files[present_inst | present_top]
+  if (length(files) == 0) {
+    return("")
+  }
+  # Make sure backslashes are replaced with slashes on Windows
+  normalizePath(files, winslash = "/")
+}
+
+# A wrapper for `system.file()`, which caches the results, because
+# `system.file()` can be slow. Note that because of caching, if
+# `system_file_cached()` is called on a package that isn't installed, then the
+# package is installed, and then `system_file_cached()` is called again, it will
+# still return "".
+system_file_cached <- local({
+  pkg_dir_cache <- character()
+
+  function(..., package = "base") {
+    if (!is.null(names(list(...)))) {
+      stop("All arguments other than `package` must be unnamed.")
+    }
+
+    not_cached <- is.na(match(package, names(pkg_dir_cache)))
+    if (not_cached) {
+      pkg_dir <- system.file(package = package)
+      pkg_dir_cache[[package]] <<- pkg_dir
+    } else {
+      pkg_dir <- pkg_dir_cache[[package]]
+    }
+
+    file.path(pkg_dir, ...)
+  }
+})

R/utils.R

@@ -2,6 +2,11 @@
 #' @include map.R
 NULL
 
+# @staticimports pkg:staticimports
+#   is_installed get_package_version system_file
+#   s3_register register_upgrade_message
+#   any_named any_unnamed
+
 #' Make a random number generator repeatable
 #'
 #' Given a function that generates random data, returns a wrapped version of
@@ -126,34 +131,6 @@ dropNullsOrEmpty <- function(x) {
   x[!vapply(x, nullOrEmpty, FUN.VALUE=logical(1))]
 }
 
-# Given a vector/list, return TRUE if any elements are named, FALSE otherwise.
-anyNamed <- function(x) {
-  # Zero-length vector
-  if (length(x) == 0) return(FALSE)
-
-  nms <- names(x)
-
-  # List with no name attribute
-  if (is.null(nms)) return(FALSE)
-
-  # List with name attribute; check for any ""
-  any(nzchar(nms))
-}
-
-# Given a vector/list, return TRUE if any elements are unnamed, FALSE otherwise.
-anyUnnamed <- function(x) {
-  # Zero-length vector
-  if (length(x) == 0) return(FALSE)
-
-  nms <- names(x)
-
-  # List with no name attribute
-  if (is.null(nms)) return(TRUE)
-
-  # List with name attribute; check for any ""
-  any(!nzchar(nms))
-}
-
 
 # Given a vector/list, returns a named vector/list (the labels will be blank).
 asNamed <- function(x) {
@@ -173,7 +150,7 @@ empty_named_list <- function() {
 # name as elements in a, the element in a is dropped. Also, if there are any
 # duplicated names in a or b, only the last one with that name is kept.
 mergeVectors <- function(a, b) {
-  if (anyUnnamed(a) || anyUnnamed(b)) {
+  if (any_unnamed(a) || any_unnamed(b)) {
     stop("Vectors must be either NULL or have names for all elements")
   }
 
@@ -185,15 +162,27 @@ mergeVectors <- function(a, b) {
 # Sort a vector by the names of items. If there are multiple items with the
 # same name, preserve the original order of those items. For empty
 # vectors/lists/NULL, return the original value.
-sortByName <- function(x) {
-  if (anyUnnamed(x))
+sortByName <- function(x, method = "auto") {
+  if (any_unnamed(x))
     stop("All items must be named")
 
   # Special case for empty vectors/lists, and NULL
   if (length(x) == 0)
     return(x)
 
-  x[order(names(x))]
+  # Must provide consistent sort order
+  #  https://github.com/rstudio/shinytest/issues/409
+  # Using a flag in the snapshot url to determine the method
+  # `method="radix"` uses `C` locale, which is consistent across platforms
+  # Even if two platforms share `en_us.UTF-8`, they may not sort consistently
+  #  https://blog.zhimingwang.org/macos-lc_collate-hunt
+  #  (macOS) $ LC_ALL=en_US.UTF-8 sort <<<$'python-dev\npython3-dev'
+  #  python-dev
+  #  python3-dev
+  #  (Linux) $ LC_ALL=en_US.UTF-8 sort <<<$'python-dev\npython3-dev'
+  #  python3-dev
+  #  python-dev
+  x[order(names(x), method = method)]
 }
 
 # Sort a vector. If a character vector, sort using C locale, which is consistent
@@ -495,7 +484,7 @@ shinyCallingHandlers <- function(expr) {
   withCallingHandlers(captureStackTraces(expr),
     error = function(e) {
       # Don't intercept shiny.silent.error (i.e. validation errors)
-      if (inherits(e, "shiny.silent.error"))
+      if (cnd_inherits(e, "shiny.silent.error"))
         return()
 
       handle <- getOption('shiny.error')
@@ -1716,24 +1705,20 @@ findEnclosingApp <- function(path = ".") {
   }
 }
 
-# Check if a package is installed, and if version is specified,
-# that we have at least that version
-is_available <- function(package, version = NULL) {
-  installed <- nzchar(system.file(package = package))
-  if (is.null(version)) {
-    return(installed)
-  }
-  installed && isTRUE(utils::packageVersion(package) >= version)
+# Until `rlang::cnd_inherits()` is on CRAN
+cnd_inherits <- function(cnd, class) {
+  cnd_some(cnd, ~ inherits(.x, class))
 }
+cnd_some <- function(.cnd, .p, ...) {
+  .p <- rlang::as_function(.p)
 
-
-# cached version of utils::packageVersion("shiny")
-shinyPackageVersion <- local({
-  version <- NULL
-  function() {
-    if (is.null(version)) {
-      version <<- utils::packageVersion("shiny")
+  while (rlang::is_condition(.cnd)) {
+    if (.p(.cnd, ...)) {
+      return(TRUE)
     }
-    version
+
+    .cnd <- .cnd$parent
   }
-})
+
+  FALSE
+}

README.md

@@ -2,7 +2,7 @@
 
 <!-- badges: start -->
 [![CRAN](https://www.r-pkg.org/badges/version/shiny)](https://CRAN.R-project.org/package=shiny)
-[![R build status](https://github.com/rstudio/shiny/workflows/R-CMD-check/badge.svg)](https://github.com/rstudio/shiny/actions)
+[![R build status](https://github.com/rstudio/shiny/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/rstudio/shiny/actions)
 [![RStudio community](https://img.shields.io/badge/community-shiny-blue?style=social&logo=rstudio&logoColor=75AADB)](https://community.rstudio.com/new-topic?category=shiny&tags=shiny)
 
 <!-- badges: end -->
@@ -16,7 +16,7 @@ Easily build rich and productive interactive web apps in R &mdash; no HTML/CSS/J
 * A prebuilt set of highly sophisticated, customizable, and easy-to-use widgets (e.g., plots, tables, sliders, dropdowns, date pickers, and more).
 * An attractive default look based on [Bootstrap](https://getbootstrap.com/) which can also be easily customized with the [bslib](https://github.com/rstudio/bslib) package or avoided entirely with more direct R bindings to HTML/CSS/JavaScript.
 * Seamless integration with [R Markdown](https://shiny.rstudio.com/articles/interactive-docs.html), making it easy to embed numerous applications natively within a larger dynamic document.
-* Tools for improving and monitoring performance, including native support for [async programming](https://blog.rstudio.com/2018/06/26/shiny-1-1-0/), [caching](https://talks.cpsievert.me/20201117), [load testing](https://rstudio.github.io/shinyloadtest/), and [more](https://support.rstudio.com/hc/en-us/articles/231874748-Scaling-and-Performance-Tuning-in-RStudio-Connect).
+* Tools for improving and monitoring performance, including native support for [async programming](https://www.rstudio.com/blog/shiny-1-1-0/), [caching](https://talks.cpsievert.me/20201117), [load testing](https://rstudio.github.io/shinyloadtest/), and more.
 * [Modules](https://shiny.rstudio.com/articles/modules.html): a framework for reducing code duplication and complexity.
 * An ability to [bookmark application state](https://shiny.rstudio.com/articles/bookmarking-state.html) and/or [generate code to reproduce output(s)](https://github.com/rstudio/shinymeta).
 * A rich ecosystem of extension packages for more [custom widgets](http://www.htmlwidgets.org/), [input validation](https://github.com/rstudio/shinyvalidate), [unit testing](https://github.com/rstudio/shinytest), and more.
@@ -47,13 +47,13 @@ For help with learning fundamental Shiny programming concepts, check out the [Ma
 
 ## Getting Help
 
-To ask a question about Shiny, please use the [RStudio Community website](https://community.rstudio.com/new-topic?category=shiny&tags=shiny). 
+To ask a question about Shiny, please use the [RStudio Community website](https://community.rstudio.com/new-topic?category=shiny&tags=shiny).
 
-For bug reports, please use the [issue tracker](https://github.com/rstudio/shiny/issues) and also keep in mind that by [writing a good bug report](https://github.com/rstudio/shiny/wiki/Writing-Good-Bug-Reports), you're more likely to get help with your problem. 
+For bug reports, please use the [issue tracker](https://github.com/rstudio/shiny/issues) and also keep in mind that by [writing a good bug report](https://github.com/rstudio/shiny/wiki/Writing-Good-Bug-Reports), you're more likely to get help with your problem.
 
 ## Contributing
 
-We welcome contributions to the **shiny** package. Please see our [CONTRIBUTING.md](https://github.com/rstudio/shiny/blob/master/.github/CONTRIBUTING.md) file for detailed guidelines of how to contribute.
+We welcome contributions to the **shiny** package. Please see our [CONTRIBUTING.md](https://github.com/rstudio/shiny/blob/main/.github/CONTRIBUTING.md) file for detailed guidelines of how to contribute.
 
 ## License
 

inst/app_template/tests/shinytest.R

@@ -1,2 +0,0 @@
-library(shinytest)
-expect_pass(testApp("../", suffix = osName()))

inst/app_template/tests/shinytest/mytest.R

@@ -1,12 +0,0 @@
-app <- ShinyDriver$new("../../")
-app$snapshotInit("mytest")
-
-app$snapshot()
-{{
-if (isTRUE(module)) {
-'
-app$setInputs(`examplemodule1-button` = "click")
-app$setInputs(`examplemodule1-button` = "click")
-app$snapshot()'
-}
-}}

inst/app_template/tests/testthat.R

@@ -1,9 +1 @@
-library(testthat)
-
-test_dir(
-  "./testthat",
-  # Run in the app's environment containing all support methods.
-  env = shiny::loadSupport(),
-  # Display the regular progress output and throw an error if any test error is found
-  reporter = c("progress", "fail")
-)
+shinytest2::test_app()

inst/app_template/tests/testthat/test-server.R

@@ -14,5 +14,4 @@ if (isTRUE(rdir)) {
   expect_equal(output$sequence, "1 2 3 4 5 6 7 8 9 10 11 12")
 '
 }
-}}
-})
+}}})

inst/app_template/tests/testthat/test-shinytest2.R

@@ -0,0 +1,18 @@
+library(shinytest2)
+
+test_that("Initial snapshot values are consistent", {
+  app <- AppDriver$new(name = "init")
+  app$expect_values()
+}){{
+if (isTRUE(module)) {
+HTML('
+
+
+test_that("Module values are consistent", {
+  app <- AppDriver$new(name = "mod")
+  app$click("examplemodule1-button")
+  app$click("examplemodule1-button")
+  app$expect_values()
+})')
+}
+}}

inst/www/shared/shiny-showcase.css

@@ -1,2 +1,2 @@
-/*! shiny 1.6.0.9022 | (c) 2012-2021 RStudio, PBC. | License: GPL-3 | file LICENSE */
+/*! shiny 1.7.2.9000 | (c) 2012-2022 RStudio, PBC. | License: GPL-3 | file LICENSE */
 #showcase-well{border-radius:0}.shiny-code{background-color:#fff;margin-bottom:0}.shiny-code code{font-family:Menlo,Consolas,"Courier New",monospace}.shiny-code-container{margin-top:20px;clear:both}.shiny-code-container h3{display:inline;margin-right:15px}.showcase-header{font-size:16px;font-weight:normal}.showcase-code-link{text-align:right;padding:15px}#showcase-app-container{vertical-align:top}#showcase-code-tabs{margin-right:15px}#showcase-code-tabs pre{border:none;line-height:1em}#showcase-code-tabs .nav{margin-bottom:0}#showcase-code-tabs ul{margin-bottom:0}#showcase-code-tabs .tab-content{border-style:solid;border-color:#e5e5e5;border-width:0px 1px 1px 1px;overflow:auto;border-bottom-right-radius:4px;border-bottom-left-radius:4px}#showcase-app-code{width:100%}#showcase-code-position-toggle{float:right}#showcase-sxs-code{padding-top:20px;vertical-align:top}.showcase-code-license{display:block;text-align:right}#showcase-code-content pre{background-color:#fff}

inst/www/shared/shiny-testmode.js

@@ -1,3 +1,3 @@
-/*! shiny 1.6.0.9022 | (c) 2012-2021 RStudio, PBC. | License: GPL-3 | file LICENSE */
+/*! shiny 1.7.2.9000 | (c) 2012-2022 RStudio, PBC. | License: GPL-3 | file LICENSE */
 (function(){var a=eval;window.addEventListener("message",function(i){var e=i.data;e.code&&a(e.code)});})();
-//# sourceMappingURL=data:application/json;base64,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
+//# sourceMappingURL=shiny-testmode.js.map

inst/www/shared/shiny-testmode.js.map

@@ -0,0 +1,7 @@
+{
+  "version": 3,
+  "sources": ["../../../srcts/src/utils/eval.ts", "../../../srcts/extras/shiny-testmode.ts"],
+  "sourcesContent": ["//esbuild.github.io/content-types/#direct-eval\n//tl/dr;\n// * Direct usage of `eval(\"x\")` is bad with bundled code.\n// * Instead, use indirect calls to `eval` such as `indirectEval(\"x\")`\n//   * Even just renaming the function works well enough.\n// > This is known as \"indirect eval\" because eval is not being called directly, and so does not trigger the grammatical special case for direct eval in the JavaScript VM. You can call indirect eval using any syntax at all except for an expression of the exact form eval('x'). For example, var eval2 = eval; eval2('x') and [eval][0]('x') and window.eval('x') are all indirect eval calls.\n// > When you use indirect eval, the code is evaluated in the global scope instead of in the inline scope of the caller.\nvar indirectEval = eval;\nexport { indirectEval };", "/* eslint-disable unicorn/filename-case */\nimport { indirectEval } from \"../src/utils/eval\"; // Listen for messages from parent frame. This file is only added when the\n// shiny.testmode option is TRUE.\n\nwindow.addEventListener(\"message\", function (e) {\n  var message = e.data;\n  if (message.code) indirectEval(message.code);\n});"],
+  "mappings": ";YAOA,GAAI,GAAe,KCHnB,OAAO,iBAAiB,UAAW,SAAU,EAAG,CAC9C,GAAI,GAAU,EAAE,KAChB,AAAI,EAAQ,MAAM,EAAa,EAAQ",
+  "names": []
+}

inst/www/shared/shiny_scss/shiny.scss

@@ -295,6 +295,15 @@ pre.shiny-text-output {
   margin-top: 0px;
 }
 
+/* Workaround for radio buttons and checkboxes not showing on Qt on Mac.
+   This occurs in the RStudio IDE on macOS 11.5.
+   https://github.com/rstudio/shiny/issues/3484
+*/
+.qtmac input[type="radio"],
+.qtmac input[type="checkbox"] {
+  zoom: 1.0000001;
+}
+
 /* consistency with bootstrap.css for selectize.js */
 .selectize-control {
   margin-bottom: 10px;

man/MockShinySession.Rd

@@ -85,40 +85,40 @@ user. Always \code{NULL} for a \code{MockShinySesion}.}
 \section{Methods}{
 \subsection{Public methods}{
 \itemize{
-\item \href{#method-new}{\code{MockShinySession$new()}}
-\item \href{#method-onFlush}{\code{MockShinySession$onFlush()}}
-\item \href{#method-onFlushed}{\code{MockShinySession$onFlushed()}}
-\item \href{#method-onEnded}{\code{MockShinySession$onEnded()}}
-\item \href{#method-isEnded}{\code{MockShinySession$isEnded()}}
-\item \href{#method-isClosed}{\code{MockShinySession$isClosed()}}
-\item \href{#method-close}{\code{MockShinySession$close()}}
-\item \href{#method-cycleStartAction}{\code{MockShinySession$cycleStartAction()}}
-\item \href{#method-fileUrl}{\code{MockShinySession$fileUrl()}}
-\item \href{#method-setInputs}{\code{MockShinySession$setInputs()}}
-\item \href{#method-.scheduleTask}{\code{MockShinySession$.scheduleTask()}}
-\item \href{#method-elapse}{\code{MockShinySession$elapse()}}
-\item \href{#method-.now}{\code{MockShinySession$.now()}}
-\item \href{#method-defineOutput}{\code{MockShinySession$defineOutput()}}
-\item \href{#method-getOutput}{\code{MockShinySession$getOutput()}}
-\item \href{#method-ns}{\code{MockShinySession$ns()}}
-\item \href{#method-flushReact}{\code{MockShinySession$flushReact()}}
-\item \href{#method-makeScope}{\code{MockShinySession$makeScope()}}
-\item \href{#method-setEnv}{\code{MockShinySession$setEnv()}}
-\item \href{#method-setReturned}{\code{MockShinySession$setReturned()}}
-\item \href{#method-getReturned}{\code{MockShinySession$getReturned()}}
-\item \href{#method-genId}{\code{MockShinySession$genId()}}
-\item \href{#method-rootScope}{\code{MockShinySession$rootScope()}}
-\item \href{#method-unhandledError}{\code{MockShinySession$unhandledError()}}
-\item \href{#method-freezeValue}{\code{MockShinySession$freezeValue()}}
-\item \href{#method-onSessionEnded}{\code{MockShinySession$onSessionEnded()}}
-\item \href{#method-registerDownload}{\code{MockShinySession$registerDownload()}}
-\item \href{#method-getCurrentOutputInfo}{\code{MockShinySession$getCurrentOutputInfo()}}
-\item \href{#method-clone}{\code{MockShinySession$clone()}}
+\item \href{#method-MockShinySession-new}{\code{MockShinySession$new()}}
+\item \href{#method-MockShinySession-onFlush}{\code{MockShinySession$onFlush()}}
+\item \href{#method-MockShinySession-onFlushed}{\code{MockShinySession$onFlushed()}}
+\item \href{#method-MockShinySession-onEnded}{\code{MockShinySession$onEnded()}}
+\item \href{#method-MockShinySession-isEnded}{\code{MockShinySession$isEnded()}}
+\item \href{#method-MockShinySession-isClosed}{\code{MockShinySession$isClosed()}}
+\item \href{#method-MockShinySession-close}{\code{MockShinySession$close()}}
+\item \href{#method-MockShinySession-cycleStartAction}{\code{MockShinySession$cycleStartAction()}}
+\item \href{#method-MockShinySession-fileUrl}{\code{MockShinySession$fileUrl()}}
+\item \href{#method-MockShinySession-setInputs}{\code{MockShinySession$setInputs()}}
+\item \href{#method-MockShinySession-.scheduleTask}{\code{MockShinySession$.scheduleTask()}}
+\item \href{#method-MockShinySession-elapse}{\code{MockShinySession$elapse()}}
+\item \href{#method-MockShinySession-.now}{\code{MockShinySession$.now()}}
+\item \href{#method-MockShinySession-defineOutput}{\code{MockShinySession$defineOutput()}}
+\item \href{#method-MockShinySession-getOutput}{\code{MockShinySession$getOutput()}}
+\item \href{#method-MockShinySession-ns}{\code{MockShinySession$ns()}}
+\item \href{#method-MockShinySession-flushReact}{\code{MockShinySession$flushReact()}}
+\item \href{#method-MockShinySession-makeScope}{\code{MockShinySession$makeScope()}}
+\item \href{#method-MockShinySession-setEnv}{\code{MockShinySession$setEnv()}}
+\item \href{#method-MockShinySession-setReturned}{\code{MockShinySession$setReturned()}}
+\item \href{#method-MockShinySession-getReturned}{\code{MockShinySession$getReturned()}}
+\item \href{#method-MockShinySession-genId}{\code{MockShinySession$genId()}}
+\item \href{#method-MockShinySession-rootScope}{\code{MockShinySession$rootScope()}}
+\item \href{#method-MockShinySession-unhandledError}{\code{MockShinySession$unhandledError()}}
+\item \href{#method-MockShinySession-freezeValue}{\code{MockShinySession$freezeValue()}}
+\item \href{#method-MockShinySession-onSessionEnded}{\code{MockShinySession$onSessionEnded()}}
+\item \href{#method-MockShinySession-registerDownload}{\code{MockShinySession$registerDownload()}}
+\item \href{#method-MockShinySession-getCurrentOutputInfo}{\code{MockShinySession$getCurrentOutputInfo()}}
+\item \href{#method-MockShinySession-clone}{\code{MockShinySession$clone()}}
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-new"></a>}}
-\if{latex}{\out{\hypertarget{method-new}{}}}
+\if{html}{\out{<a id="method-MockShinySession-new"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-new}{}}}
 \subsection{Method \code{new()}}{
 Create a new MockShinySession.
 \subsection{Usage}{
@@ -127,8 +127,8 @@ Create a new MockShinySession.
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-onFlush"></a>}}
-\if{latex}{\out{\hypertarget{method-onFlush}{}}}
+\if{html}{\out{<a id="method-MockShinySession-onFlush"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-onFlush}{}}}
 \subsection{Method \code{onFlush()}}{
 Define a callback to be invoked before a reactive flush
 \subsection{Usage}{
@@ -146,8 +146,8 @@ Define a callback to be invoked before a reactive flush
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-onFlushed"></a>}}
-\if{latex}{\out{\hypertarget{method-onFlushed}{}}}
+\if{html}{\out{<a id="method-MockShinySession-onFlushed"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-onFlushed}{}}}
 \subsection{Method \code{onFlushed()}}{
 Define a callback to be invoked after a reactive flush
 \subsection{Usage}{
@@ -165,8 +165,8 @@ Define a callback to be invoked after a reactive flush
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-onEnded"></a>}}
-\if{latex}{\out{\hypertarget{method-onEnded}{}}}
+\if{html}{\out{<a id="method-MockShinySession-onEnded"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-onEnded}{}}}
 \subsection{Method \code{onEnded()}}{
 Define a callback to be invoked when the session ends
 \subsection{Usage}{
@@ -182,8 +182,8 @@ Define a callback to be invoked when the session ends
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-isEnded"></a>}}
-\if{latex}{\out{\hypertarget{method-isEnded}{}}}
+\if{html}{\out{<a id="method-MockShinySession-isEnded"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-isEnded}{}}}
 \subsection{Method \code{isEnded()}}{
 Returns \code{FALSE} if the session has not yet been closed
 \subsection{Usage}{
@@ -192,8 +192,8 @@ Returns \code{FALSE} if the session has not yet been closed
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-isClosed"></a>}}
-\if{latex}{\out{\hypertarget{method-isClosed}{}}}
+\if{html}{\out{<a id="method-MockShinySession-isClosed"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-isClosed}{}}}
 \subsection{Method \code{isClosed()}}{
 Returns \code{FALSE} if the session has not yet been closed
 \subsection{Usage}{
@@ -202,8 +202,8 @@ Returns \code{FALSE} if the session has not yet been closed
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-close"></a>}}
-\if{latex}{\out{\hypertarget{method-close}{}}}
+\if{html}{\out{<a id="method-MockShinySession-close"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-close}{}}}
 \subsection{Method \code{close()}}{
 Closes the session
 \subsection{Usage}{
@@ -212,8 +212,8 @@ Closes the session
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-cycleStartAction"></a>}}
-\if{latex}{\out{\hypertarget{method-cycleStartAction}{}}}
+\if{html}{\out{<a id="method-MockShinySession-cycleStartAction"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-cycleStartAction}{}}}
 \subsection{Method \code{cycleStartAction()}}{
 Unsophisticated mock implementation that merely invokes
 \subsection{Usage}{
@@ -229,8 +229,8 @@ Unsophisticated mock implementation that merely invokes
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-fileUrl"></a>}}
-\if{latex}{\out{\hypertarget{method-fileUrl}{}}}
+\if{html}{\out{<a id="method-MockShinySession-fileUrl"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-fileUrl}{}}}
 \subsection{Method \code{fileUrl()}}{
 Base64-encode the given file. Needed for image rendering.
 \subsection{Usage}{
@@ -250,8 +250,8 @@ Base64-encode the given file. Needed for image rendering.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-setInputs"></a>}}
-\if{latex}{\out{\hypertarget{method-setInputs}{}}}
+\if{html}{\out{<a id="method-MockShinySession-setInputs"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-setInputs}{}}}
 \subsection{Method \code{setInputs()}}{
 Sets reactive values associated with the \code{session$inputs}
 object and flushes the reactives.
@@ -280,8 +280,8 @@ session$setInputs(x=1, y=2)
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-.scheduleTask"></a>}}
-\if{latex}{\out{\hypertarget{method-.scheduleTask}{}}}
+\if{html}{\out{<a id="method-MockShinySession-.scheduleTask"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-.scheduleTask}{}}}
 \subsection{Method \code{.scheduleTask()}}{
 An internal method which shouldn't be used by others.
 Schedules \code{callback} for execution after some number of \code{millis}
@@ -301,8 +301,8 @@ milliseconds.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-elapse"></a>}}
-\if{latex}{\out{\hypertarget{method-elapse}{}}}
+\if{html}{\out{<a id="method-MockShinySession-elapse"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-elapse}{}}}
 \subsection{Method \code{elapse()}}{
 Simulate the passing of time by the given number of milliseconds.
 \subsection{Usage}{
@@ -318,8 +318,8 @@ Simulate the passing of time by the given number of milliseconds.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-.now"></a>}}
-\if{latex}{\out{\hypertarget{method-.now}{}}}
+\if{html}{\out{<a id="method-MockShinySession-.now"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-.now}{}}}
 \subsection{Method \code{.now()}}{
 An internal method which shouldn't be used by others.
 \subsection{Usage}{
@@ -331,8 +331,8 @@ Elapsed time in milliseconds.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-defineOutput"></a>}}
-\if{latex}{\out{\hypertarget{method-defineOutput}{}}}
+\if{html}{\out{<a id="method-MockShinySession-defineOutput"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-defineOutput}{}}}
 \subsection{Method \code{defineOutput()}}{
 An internal method which shouldn't be used by others.
 Defines an output in a way that sets private$currentOutputName
@@ -354,8 +354,8 @@ appropriately.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-getOutput"></a>}}
-\if{latex}{\out{\hypertarget{method-getOutput}{}}}
+\if{html}{\out{<a id="method-MockShinySession-getOutput"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-getOutput}{}}}
 \subsection{Method \code{getOutput()}}{
 An internal method which shouldn't be used by others. Forces
 evaluation of any reactive dependencies of the output function.
@@ -376,8 +376,8 @@ output.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-ns"></a>}}
-\if{latex}{\out{\hypertarget{method-ns}{}}}
+\if{html}{\out{<a id="method-MockShinySession-ns"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-ns}{}}}
 \subsection{Method \code{ns()}}{
 Returns the given id prefixed by this namespace's id.
 \subsection{Usage}{
@@ -396,8 +396,8 @@ The id with a namespace prefix.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-flushReact"></a>}}
-\if{latex}{\out{\hypertarget{method-flushReact}{}}}
+\if{html}{\out{<a id="method-MockShinySession-flushReact"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-flushReact}{}}}
 \subsection{Method \code{flushReact()}}{
 Trigger a reactive flush right now.
 \subsection{Usage}{
@@ -406,8 +406,8 @@ Trigger a reactive flush right now.
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-makeScope"></a>}}
-\if{latex}{\out{\hypertarget{method-makeScope}{}}}
+\if{html}{\out{<a id="method-MockShinySession-makeScope"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-makeScope}{}}}
 \subsection{Method \code{makeScope()}}{
 Create and return a namespace-specific session proxy.
 \subsection{Usage}{
@@ -426,8 +426,8 @@ A new session proxy.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-setEnv"></a>}}
-\if{latex}{\out{\hypertarget{method-setEnv}{}}}
+\if{html}{\out{<a id="method-MockShinySession-setEnv"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-setEnv}{}}}
 \subsection{Method \code{setEnv()}}{
 Set the environment associated with a testServer() call, but
 only if it has not previously been set. This ensures that only the
@@ -449,8 +449,8 @@ The provided \code{env}.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-setReturned"></a>}}
-\if{latex}{\out{\hypertarget{method-setReturned}{}}}
+\if{html}{\out{<a id="method-MockShinySession-setReturned"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-setReturned}{}}}
 \subsection{Method \code{setReturned()}}{
 Set the value returned by the module call and proactively
 flush. Note that this method may be called multiple times if modules
@@ -472,8 +472,8 @@ The provided \code{value}.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-getReturned"></a>}}
-\if{latex}{\out{\hypertarget{method-getReturned}{}}}
+\if{html}{\out{<a id="method-MockShinySession-getReturned"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-getReturned}{}}}
 \subsection{Method \code{getReturned()}}{
 Get the value returned by the module call.
 \subsection{Usage}{
@@ -485,8 +485,8 @@ The value returned by the module call
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-genId"></a>}}
-\if{latex}{\out{\hypertarget{method-genId}{}}}
+\if{html}{\out{<a id="method-MockShinySession-genId"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-genId}{}}}
 \subsection{Method \code{genId()}}{
 Generate a distinct character identifier for use as a proxy
 namespace.
@@ -499,8 +499,8 @@ A character identifier unique to the current session.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-rootScope"></a>}}
-\if{latex}{\out{\hypertarget{method-rootScope}{}}}
+\if{html}{\out{<a id="method-MockShinySession-rootScope"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-rootScope}{}}}
 \subsection{Method \code{rootScope()}}{
 Provides a way to access the root \code{MockShinySession} from
 any descendant proxy.
@@ -513,8 +513,8 @@ The root \code{MockShinySession}.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-unhandledError"></a>}}
-\if{latex}{\out{\hypertarget{method-unhandledError}{}}}
+\if{html}{\out{<a id="method-MockShinySession-unhandledError"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-unhandledError}{}}}
 \subsection{Method \code{unhandledError()}}{
 Called by observers when a reactive expression errors.
 \subsection{Usage}{
@@ -530,8 +530,8 @@ Called by observers when a reactive expression errors.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-freezeValue"></a>}}
-\if{latex}{\out{\hypertarget{method-freezeValue}{}}}
+\if{html}{\out{<a id="method-MockShinySession-freezeValue"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-freezeValue}{}}}
 \subsection{Method \code{freezeValue()}}{
 Freeze a value until the flush cycle completes.
 \subsection{Usage}{
@@ -549,8 +549,8 @@ Freeze a value until the flush cycle completes.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-onSessionEnded"></a>}}
-\if{latex}{\out{\hypertarget{method-onSessionEnded}{}}}
+\if{html}{\out{<a id="method-MockShinySession-onSessionEnded"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-onSessionEnded}{}}}
 \subsection{Method \code{onSessionEnded()}}{
 Registers the given callback to be invoked when the session
 is closed (i.e. the connection to the client has been severed). The
@@ -570,8 +570,8 @@ guaranteed.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-registerDownload"></a>}}
-\if{latex}{\out{\hypertarget{method-registerDownload}{}}}
+\if{html}{\out{<a id="method-MockShinySession-registerDownload"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-registerDownload}{}}}
 \subsection{Method \code{registerDownload()}}{
 Associated a downloadable file with the session.
 \subsection{Usage}{
@@ -598,8 +598,8 @@ function.)}
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-getCurrentOutputInfo"></a>}}
-\if{latex}{\out{\hypertarget{method-getCurrentOutputInfo}{}}}
+\if{html}{\out{<a id="method-MockShinySession-getCurrentOutputInfo"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-getCurrentOutputInfo}{}}}
 \subsection{Method \code{getCurrentOutputInfo()}}{
 Get information about the output that is currently being
 executed.
@@ -614,8 +614,8 @@ output, or \code{NULL} if no output is currently executing.
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-clone"></a>}}
-\if{latex}{\out{\hypertarget{method-clone}{}}}
+\if{html}{\out{<a id="method-MockShinySession-clone"></a>}}
+\if{latex}{\out{\hypertarget{method-MockShinySession-clone}{}}}
 \subsection{Method \code{clone()}}{
 The objects of this class are cloneable with this method.
 \subsection{Usage}{

man/Progress.Rd

@@ -62,19 +62,19 @@ shinyApp(ui, server)
 \section{Methods}{
 \subsection{Public methods}{
 \itemize{
-\item \href{#method-new}{\code{Progress$new()}}
-\item \href{#method-set}{\code{Progress$set()}}
-\item \href{#method-inc}{\code{Progress$inc()}}
-\item \href{#method-getMin}{\code{Progress$getMin()}}
-\item \href{#method-getMax}{\code{Progress$getMax()}}
-\item \href{#method-getValue}{\code{Progress$getValue()}}
-\item \href{#method-close}{\code{Progress$close()}}
-\item \href{#method-clone}{\code{Progress$clone()}}
+\item \href{#method-Progress-new}{\code{Progress$new()}}
+\item \href{#method-Progress-set}{\code{Progress$set()}}
+\item \href{#method-Progress-inc}{\code{Progress$inc()}}
+\item \href{#method-Progress-getMin}{\code{Progress$getMin()}}
+\item \href{#method-Progress-getMax}{\code{Progress$getMax()}}
+\item \href{#method-Progress-getValue}{\code{Progress$getValue()}}
+\item \href{#method-Progress-close}{\code{Progress$close()}}
+\item \href{#method-Progress-clone}{\code{Progress$clone()}}
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-new"></a>}}
-\if{latex}{\out{\hypertarget{method-new}{}}}
+\if{html}{\out{<a id="method-Progress-new"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-new}{}}}
 \subsection{Method \code{new()}}{
 Creates a new progress panel (but does not display it).
 \subsection{Usage}{
@@ -107,8 +107,8 @@ is for backward-compatibility).}
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-set"></a>}}
-\if{latex}{\out{\hypertarget{method-set}{}}}
+\if{html}{\out{<a id="method-Progress-set"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-set}{}}}
 \subsection{Method \code{set()}}{
 Updates the progress panel. When called the first time, the
 progress panel is displayed.
@@ -135,8 +135,8 @@ relative to \code{message}.}
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-inc"></a>}}
-\if{latex}{\out{\hypertarget{method-inc}{}}}
+\if{html}{\out{<a id="method-Progress-inc"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-inc}{}}}
 \subsection{Method \code{inc()}}{
 Like \code{set}, this updates the progress panel. The difference
 is that \code{inc} increases the progress bar by \code{amount}, instead of
@@ -163,8 +163,8 @@ relative to \code{message}.}
 }
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-getMin"></a>}}
-\if{latex}{\out{\hypertarget{method-getMin}{}}}
+\if{html}{\out{<a id="method-Progress-getMin"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-getMin}{}}}
 \subsection{Method \code{getMin()}}{
 Returns the minimum value.
 \subsection{Usage}{
@@ -173,8 +173,8 @@ Returns the minimum value.
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-getMax"></a>}}
-\if{latex}{\out{\hypertarget{method-getMax}{}}}
+\if{html}{\out{<a id="method-Progress-getMax"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-getMax}{}}}
 \subsection{Method \code{getMax()}}{
 Returns the maximum value.
 \subsection{Usage}{
@@ -183,8 +183,8 @@ Returns the maximum value.
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-getValue"></a>}}
-\if{latex}{\out{\hypertarget{method-getValue}{}}}
+\if{html}{\out{<a id="method-Progress-getValue"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-getValue}{}}}
 \subsection{Method \code{getValue()}}{
 Returns the current value.
 \subsection{Usage}{
@@ -193,8 +193,8 @@ Returns the current value.
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-close"></a>}}
-\if{latex}{\out{\hypertarget{method-close}{}}}
+\if{html}{\out{<a id="method-Progress-close"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-close}{}}}
 \subsection{Method \code{close()}}{
 Removes the progress panel. Future calls to \code{set} and
 \code{close} will be ignored.
@@ -204,8 +204,8 @@ Removes the progress panel. Future calls to \code{set} and
 
 }
 \if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-clone"></a>}}
-\if{latex}{\out{\hypertarget{method-clone}{}}}
+\if{html}{\out{<a id="method-Progress-clone"></a>}}
+\if{latex}{\out{\hypertarget{method-Progress-clone}{}}}
 \subsection{Method \code{clone()}}{
 The objects of this class are cloneable with this method.
 \subsection{Usage}{

man/bindCache.Rd

@@ -40,7 +40,9 @@ sense, namely:
 
 In the example here, the \code{bindCache()} key consists of \code{input$x} and
 \code{input$y} combined, and the value is \code{input$x * input$y}. In this simple
-example, for any given key, there is only one possible returned value.\if{html}{\out{<div class="NA">}}\preformatted{r <- reactive(\{ input$x * input$y \}) \%>\%
+example, for any given key, there is only one possible returned value.
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{r <- reactive(\{ input$x * input$y \}) \%>\%
   bindCache(input$x, input$y)
 }\if{html}{\out{</div>}}
 
@@ -63,7 +65,9 @@ to do some sort of reduction on the data that still captures information
 about whether a value can be retrieved from the cache. For example, if you
 have a large data set with timestamps, it might make sense to extract the
 most recent timestamp and return that. Then, instead of hashing the entire
-data object, the cached reactive only needs to hash the timestamp.\if{html}{\out{<div class="NA">}}\preformatted{r <- reactive(\{ compute(bigdata()) \} \%>\%
+data object, the cached reactive only needs to hash the timestamp.
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{r <- reactive(\{ compute(bigdata()) \} \%>\%
   bindCache(\{ extract_most_recent_time(bigdata()) \})
 }\if{html}{\out{</div>}}
 
@@ -105,7 +109,9 @@ cache key is not too expensive.
 Remember that the key is \emph{reactive}, so it is not re-executed every single
 time that someone accesses the cached reactive. It is only re-executed if
 it has been invalidated by one of the reactives it depends on. For
-example, suppose we have this cached reactive:\if{html}{\out{<div class="NA">}}\preformatted{r <- reactive(\{ input$x * input$y \}) \%>\%
+example, suppose we have this cached reactive:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{r <- reactive(\{ input$x * input$y \}) \%>\%
  bindCache(input$x, input$y)
 }\if{html}{\out{</div>}}
 
@@ -154,24 +160,30 @@ persists beyond the current R session.
 To use different settings for an application-scoped cache, you can call
 \code{\link[=shinyOptions]{shinyOptions()}} at the top of your app.R, server.R, or
 global.R. For example, this will create a cache with 500 MB of space
-instead of the default 200 MB:\preformatted{shinyOptions(cache = cachem::cache_mem(max_size = 500e6))
-}
+instead of the default 200 MB:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{shinyOptions(cache = cachem::cache_mem(max_size = 500e6))
+}\if{html}{\out{</div>}}
 
 To use different settings for a session-scoped cache, you can set
 \code{self$cache} at the top of your server function. By default, it will create
 a 200 MB memory cache for each session, but you can replace it with
 something different. To use the session-scoped cache, you must also call
 \code{bindCache()} with \code{cache="session"}. This will create a 100 MB cache for
-the session:\preformatted{function(input, output, session) \{
+the session:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{function(input, output, session) \{
   session$cache <- cachem::cache_mem(max_size = 100e6)
   ...
 \}
-}
+}\if{html}{\out{</div>}}
 
 If you want to use a cache that is shared across multiple R processes, you
 can use a \code{\link[cachem:cache_disk]{cachem::cache_disk()}}. You can create a application-level shared
-cache by putting this at the top of your app.R, server.R, or global.R:\preformatted{shinyOptions(cache = cachem::cache_disk(file.path(dirname(tempdir()), "myapp-cache"))
-}
+cache by putting this at the top of your app.R, server.R, or global.R:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{shinyOptions(cache = cachem::cache_disk(file.path(dirname(tempdir()), "myapp-cache"))
+}\if{html}{\out{</div>}}
 
 This will create a subdirectory in your system temp directory named
 \code{myapp-cache} (replace \code{myapp-cache} with a unique name of
@@ -181,8 +193,10 @@ stops of the R process, as long as you do not reboot.
 
 To have the cache persist even across multiple reboots, you can create the
 cache in a location outside of the temp directory. For example, it could
-be a subdirectory of the application:\preformatted{shinyOptions(cache = cachem::cache_disk("./myapp-cache"))
-}
+be a subdirectory of the application:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{shinyOptions(cache = cachem::cache_disk("./myapp-cache"))
+}\if{html}{\out{</div>}}
 
 In this case, resetting the cache will have to be done manually, by deleting
 the directory.
@@ -244,12 +258,14 @@ cache collisions, dealing with internal state that may be set by the,
 the cache.
 
 You may need to provide a \code{cacheHint} to \code{\link[=createRenderFunction]{createRenderFunction()}} (or
-\code{\link[htmlwidgets:htmlwidgets-shiny]{htmlwidgets::shinyRenderWidget()}}, if you've authored an htmlwidget) in
+\code{htmlwidgets::shinyRenderWidget()}, if you've authored an htmlwidget) in
 order for \code{bindCache()} to correctly compute a cache key.
 
-The potential problem is a cache collision. Consider the following:\preformatted{output$x1 <- renderText(\{ input$x \}) \%>\% bindCache(input$x)
+The potential problem is a cache collision. Consider the following:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{output$x1 <- renderText(\{ input$x \}) \%>\% bindCache(input$x)
 output$x2 <- renderText(\{ input$x * 2 \}) \%>\% bindCache(input$x)
-}
+}\if{html}{\out{</div>}}
 
 Both \code{output$x1} and \code{output$x2} use \code{input$x} as part of their cache key,
 but if it were the only thing used in the cache key, then the two outputs
@@ -258,7 +274,9 @@ this, a \emph{cache hint} is automatically added when \code{\link[=renderText]{r
 \code{\link[=createRenderFunction]{createRenderFunction()}}. The cache hint is used as part of the actual
 cache key, in addition to the one passed to \code{bindCache()} by the user. The
 cache hint can be viewed by calling the internal Shiny function
-\code{extractCacheHint()}:\if{html}{\out{<div class="NA">}}\preformatted{r <- renderText(\{ input$x \})
+\code{extractCacheHint()}:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{r <- renderText(\{ input$x \})
 shiny:::extractCacheHint(r)
 }\if{html}{\out{</div>}}
 
@@ -289,7 +307,9 @@ that may influence the final value.
 For \pkg{htmlwidgets}, it will try to automatically infer a cache hint;
 again, you can inspect the cache hint with \code{shiny:::extractCacheHint()} and
 also test it in an application. If you do need to explicitly provide a
-cache hint, pass it to \code{shinyRenderWidget}. For example:\preformatted{renderMyWidget <- function(expr) \{
+cache hint, pass it to \code{shinyRenderWidget}. For example:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{renderMyWidget <- function(expr) \{
   q <- rlang::enquo0(expr)
 
   htmlwidgets::shinyRenderWidget(
@@ -299,7 +319,7 @@ cache hint, pass it to \code{shinyRenderWidget}. For example:\preformatted{rende
     cacheHint = list(label = "myWidget", userQuo = q)
   )
 \}
-}
+}\if{html}{\out{</div>}}
 
 If your \code{render} function sets any internal state, you may find it useful
 in your call to \code{\link[=createRenderFunction]{createRenderFunction()}} to use
@@ -330,8 +350,10 @@ For developers of such code, they should call \code{\link[=createRenderFunction]
 
 When \code{bindCache()} is used with \code{renderPlot()}, the \code{height} and \code{width}
 passed to the original \code{renderPlot()} are ignored. They are superseded by
-\code{sizePolicy} argument passed to `bindCache. The default is:\preformatted{sizePolicy = sizeGrowthRatio(width = 400, height = 400, growthRate = 1.2)
-}
+\code{sizePolicy} argument passed to `bindCache. The default is:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{sizePolicy = sizeGrowthRatio(width = 400, height = 400, growthRate = 1.2)
+}\if{html}{\out{</div>}}
 
 \code{sizePolicy} must be a function that takes a two-element numeric vector as
 input, representing the width and height of the \verb{<img>} element in the

man/bindEvent.Rd

@@ -171,7 +171,9 @@ user sets both \code{x} and \code{y}, and then clicks on an \link{actionButton}
 \code{go}.
 
 To use both caching and events, the object should first be passed to
-\code{bindCache()}, then \code{bindEvent()}. For example:\if{html}{\out{<div class="NA">}}\preformatted{r <- reactive(\{
+\code{bindCache()}, then \code{bindEvent()}. For example:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{r <- reactive(\{
    Sys.sleep(2)  # Pretend this is an expensive computation
    input$x * input$y
  \}) \%>\%

man/bootstrapPage.Rd

@@ -28,7 +28,7 @@ This will be used as the lang in the \code{<html>} tag, as in \code{<html lang="
 The default (NULL) results in an empty string.}
 }
 \value{
-A UI defintion that can be passed to the \link{shinyUI} function.
+A UI definition that can be passed to the \link{shinyUI} function.
 }
 \description{
 Create a Shiny UI page that loads the CSS and JavaScript for

man/createRenderFunction.Rd

@@ -125,12 +125,12 @@ function.
 }
 \section{Functions}{
 \itemize{
-\item \code{quoToFunction}: convert a quosure to a function.
+\item \code{quoToFunction()}: convert a quosure to a function.
 
-\item \code{installExprFunction}: converts a user's reactive \code{expr} into a
+\item \code{installExprFunction()}: converts a user's reactive \code{expr} into a
 function that's assigned to a \code{name} in the \code{assign.env}.
-}}
 
+}}
 \examples{
 # A custom render function that repeats the supplied value 3 times
 renderTriple <- function(expr) {

man/devmode.Rd

@@ -84,24 +84,26 @@ Please see the function descriptions for more details.
 }
 \section{Functions}{
 \itemize{
-\item \code{devmode}: Function to set two options to enable/disable Shiny
+\item \code{devmode()}: Function to set two options to enable/disable Shiny
 Developer Mode and Developer messages
 
-\item \code{in_devmode}: Determines if Shiny is in Developer Mode. If the
+\item \code{in_devmode()}: Determines if Shiny is in Developer Mode. If the
 \code{getOption("shiny.devmode")} is set to \code{TRUE} and not in testing inside
 \code{testthat}, then Shiny Developer Mode is enabled.
 
-\item \code{with_devmode}: Temporarily set Shiny Developer Mode and Developer
+\item \code{with_devmode()}: Temporarily set Shiny Developer Mode and Developer
 message verbosity
 
-\item \code{devmode_inform}: If Shiny Developer Mode and verbosity are enabled,
+\item \code{devmode_inform()}: If Shiny Developer Mode and verbosity are enabled,
 displays a message once every 8 hrs (by default)
 
-\item \code{register_devmode_option}: Registers a Shiny Developer Mode option with an updated
+\item \code{register_devmode_option()}: Registers a Shiny Developer Mode option with an updated
 value and Developer message. This registration method allows package
 authors to write one message in a single location.
 
-For example, the following Shiny Developer Mode options are registered:\if{html}{\out{<div class="r">}}\preformatted{# Reload the Shiny app when a sourced R file changes
+For example, the following Shiny Developer Mode options are registered:
+
+\if{html}{\out{<div class="sourceCode r">}}\preformatted{# Reload the Shiny app when a sourced R file changes
 register_devmode_option(
   "shiny.autoreload",
   "Turning on shiny autoreload. To disable, call `options(shiny.autoreload = FALSE)`",
@@ -126,7 +128,9 @@ register_devmode_option(
 Other known, non-Shiny Developer Mode options:
 \itemize{
 \item Sass:
-}\if{html}{\out{<div class="r">}}\preformatted{# Display the full stack trace when errors occur during Shiny app execution
+}
+
+\if{html}{\out{<div class="sourceCode r">}}\preformatted{# Display the full stack trace when errors occur during Shiny app execution
 register_devmode_option(
   "sass.cache",
   "Turning off sass cache. To use default caching, call `options(sass.cache = TRUE)`",
@@ -134,7 +138,7 @@ register_devmode_option(
 )
 }\if{html}{\out{</div>}}
 
-\item \code{get_devmode_option}: Provides a consistent way to change the expected
+\item \code{get_devmode_option()}: Provides a consistent way to change the expected
 \code{\link[=getOption]{getOption()}} behavior when Developer Mode is enabled. This method is very
 similar to \code{\link[=getOption]{getOption()}} where the globally set option takes precedence.
 See section "Avoiding direct dependency on shiny" for
@@ -144,8 +148,8 @@ See section "Avoiding direct dependency on shiny" for
 \code{register_devmode_option()} to avoid supplying the same \code{devmode_default}
 and \code{devmode_message} values throughout your package. (This requires a
 \pkg{shiny} dependency.)
-}}
 
+}}
 \section{Avoiding direct dependency on shiny}{
 
 
@@ -165,7 +169,9 @@ re-implementing these two functions:
 
 This function should return \code{TRUE} if \code{getOption("shiny.devmode")} is set.
 In addition, we strongly recommend that it also checks to make sure
-\code{testthat} is not testing.\if{html}{\out{<div class="r">}}\preformatted{in_devmode <- function() \{
+\code{testthat} is not testing.
+
+\if{html}{\out{<div class="sourceCode r">}}\preformatted{in_devmode <- function() \{
   isTRUE(getOption("shiny.devmode", FALSE)) &&
     !identical(Sys.getenv("TESTTHAT"), "true")
 \}
@@ -201,7 +207,9 @@ recommend displaying a message (\code{devmode_message}) to \code{stderr()} once
 hours using \code{\link[rlang:abort]{rlang::inform()}}. This will keep the author up to date as to
 which Dev Mode options are being altered. To allow developers a chance to
 disable Dev Mode messages, the message should be skipped if
-\code{getOption("shiny.devmode.verbose", TRUE)} is not \code{TRUE}.\if{html}{\out{<div class="r">}}\preformatted{get_devmode_option <- function(name, default = NULL, devmode_default, devmode_message) \{
+\code{getOption("shiny.devmode.verbose", TRUE)} is not \code{TRUE}.
+
+\if{html}{\out{<div class="sourceCode r">}}\preformatted{get_devmode_option <- function(name, default = NULL, devmode_default, devmode_message) \{
   if (!in_devmode()) \{
     # Dev Mode disabled, act like `getOption()`
     return(getOption(name, default = default))

man/diskCache.Rd

@@ -40,7 +40,7 @@ deleted from disk. If \code{FALSE} (the default), it will do nothing when
 finalized.}
 
 \item{missing}{A value to return when \code{get(key)} is called but the key is not
-present in the cache. The default is a \code{\link[cachem:reexports]{key_missing()}} object. It is
+present in the cache. The default is a \code{\link[cachem:key_missing]{key_missing()}} object. It is
 actually an expression that is evaluated each time there is a cache miss.
 See section Missing keys for more information.}
 

man/downloadHandler.Rd

@@ -4,7 +4,7 @@
 \alias{downloadHandler}
 \title{File Downloads}
 \usage{
-downloadHandler(filename, content, contentType = NA, outputArgs = list())
+downloadHandler(filename, content, contentType = NULL, outputArgs = list())
 }
 \arguments{
 \item{filename}{A string of the filename, including extension, that the
@@ -19,9 +19,9 @@ function.)}
 
 \item{contentType}{A string of the download's
 \href{https://en.wikipedia.org/wiki/Internet_media_type}{content type}, for
-example \code{"text/csv"} or \code{"image/png"}. If \code{NULL} or
-\code{NA}, the content type will be guessed based on the filename
-extension, or \code{application/octet-stream} if the extension is unknown.}
+example \code{"text/csv"} or \code{"image/png"}. If \code{NULL}, the content type
+will be guessed based on the filename extension, or
+\code{application/octet-stream} if the extension is unknown.}
 
 \item{outputArgs}{A list of arguments to be passed through to the implicit
 call to \code{\link[=downloadButton]{downloadButton()}} when \code{downloadHandler} is used

man/fileInput.Rd

@@ -11,7 +11,8 @@ fileInput(
   accept = NULL,
   width = NULL,
   buttonLabel = "Browse...",
-  placeholder = "No file selected"
+  placeholder = "No file selected",
+  capture = NULL
 )
 }
 \arguments{
@@ -42,6 +43,19 @@ see \code{\link[=validateCssUnit]{validateCssUnit()}}.}
 object.}
 
 \item{placeholder}{The text to show before a file has been uploaded.}
+
+\item{capture}{What source to use for capturing image, audio or video data.
+This attribute facilitates user access to a device's media capture
+mechanism, such as a camera, or microphone, from within a file upload
+control.
+
+A value of \code{user} indicates that the user-facing camera and/or microphone
+should be used. A value of \code{environment} specifies that the outward-facing
+camera and/or microphone should be used.
+
+By default on most phones, this will accept still photos or video. For
+still photos only, also use \code{accept="image/*"}. For video only, use
+\code{accept="video/*"}.}
 }
 \description{
 Create a file upload control that can be used to upload one or more files.

man/fixedPage.Rd

@@ -28,7 +28,7 @@ This will be used as the lang in the \code{<html>} tag, as in \code{<html lang="
 The default (NULL) results in an empty string.}
 }
 \value{
-A UI defintion that can be passed to the \link{shinyUI} function.
+A UI definition that can be passed to the \link{shinyUI} function.
 }
 \description{
 Functions for creating fixed page layouts. A fixed page layout consists of

man/fluidPage.Rd

@@ -29,7 +29,7 @@ This will be used as the lang in the \code{<html>} tag, as in \code{<html lang="
 The default (NULL) results in an empty string.}
 }
 \value{
-A UI defintion that can be passed to the \link{shinyUI} function.
+A UI definition that can be passed to the \link{shinyUI} function.
 }
 \description{
 Functions for creating fluid page layouts. A fluid page layout consists of

man/loadSupport.Rd

@@ -15,7 +15,7 @@ loadSupport(
 not supplied, the nearest enclosing directory that is a Shiny app, starting
 with the current directory, is used.}
 
-\item{renv}{The environmeny in which the files in the \verb{R/} directory should
+\item{renv}{The environment in which the files in the \verb{R/} directory should
 be evaluated.}
 
 \item{globalrenv}{The environment in which \code{global.R} should be evaluated. If

man/memoryCache.Rd

@@ -30,7 +30,7 @@ value of \code{evict}. Use \code{Inf} for no limit of number of items.}
 when a cache pruning occurs. Currently, \code{"lru"} and \code{"fifo"} are supported.}
 
 \item{missing}{A value to return when \code{get(key)} is called but the key is not
-present in the cache. The default is a \code{\link[cachem:reexports]{key_missing()}} object. It is
+present in the cache. The default is a \code{\link[cachem:key_missing]{key_missing()}} object. It is
 actually an expression that is evaluated each time there is a cache miss.
 See section Missing keys for more information.}
 

man/navbarPage.Rd

@@ -89,7 +89,7 @@ is needed if you want to insert/remove or show/hide an entire
 \item{icon}{Optional icon to appear on a \code{navbarMenu} tab.}
 }
 \value{
-A UI defintion that can be passed to the \link{shinyUI} function.
+A UI definition that can be passed to the \link{shinyUI} function.
 }
 \description{
 Create a page that contains a top level navigation bar that can be used to

man/pageWithSidebar.Rd

@@ -14,7 +14,7 @@ pageWithSidebar(headerPanel, sidebarPanel, mainPanel)
 \item{mainPanel}{The \link{mainPanel} containing outputs}
 }
 \value{
-A UI defintion that can be passed to the \link{shinyUI} function
+A UI definition that can be passed to the \link{shinyUI} function
 }
 \description{
 \strong{DEPRECATED}: use \code{\link[=fluidPage]{fluidPage()}} and \code{\link[=sidebarLayout]{sidebarLayout()}} instead.

man/plotPNG.Rd

@@ -2,7 +2,7 @@
 % Please edit documentation in R/imageutils.R
 \name{plotPNG}
 \alias{plotPNG}
-\title{Run a plotting function and save the output as a PNG}
+\title{Capture a plot as a PNG file.}
 \usage{
 plotPNG(
   func,
@@ -23,27 +23,26 @@ extension \code{.png}.}
 
 \item{height}{Height in pixels.}
 
-\item{res}{Resolution in pixels per inch. This value is passed to
-\code{\link[grDevices:png]{grDevices::png()}}. Note that this affects the resolution of PNG rendering in
+\item{res}{Resolution in pixels per inch. This value is passed to the
+graphics device. Note that this affects the resolution of PNG rendering in
 R; it won't change the actual ppi of the browser.}
 
-\item{...}{Arguments to be passed through to \code{\link[grDevices:png]{grDevices::png()}}.
-These can be used to set the width, height, background color, etc.}
+\item{...}{Arguments to be passed through to the graphics device. These can
+be used to set the width, height, background color, etc.}
+}
+\value{
+A path to the newly generated PNG file.
 }
 \description{
-This function returns the name of the PNG file that it generates. In
-essence, it calls \code{png()}, then \code{func()}, then \code{dev.off()}.
-So \code{func} must be a function that will generate a plot when used this
-way.
+The PNG graphics device used is determined in the following order:
+\itemize{
+\item If the ragg package is installed (and the \code{shiny.useragg} is not
+set to \code{FALSE}), then use \code{\link[ragg:agg_png]{ragg::agg_png()}}.
+\item If a quartz device is available (i.e., \code{capabilities("aqua")} is
+\code{TRUE}), then use \code{png(type = "quartz")}.
+\item If the Cairo package is installed (and the \code{shiny.usecairo} option
+is not set to \code{FALSE}), then use \code{\link[Cairo:Cairo]{Cairo::CairoPNG()}}.
+\item Otherwise, use \code{\link[grDevices:png]{grDevices::png()}}. In this case, Linux and Windows
+may not antialias some point shapes, resulting in poor quality output.
 }
-\details{
-For output, it will try to use the following devices, in this order:
-quartz (via \code{\link[grDevices:png]{grDevices::png()}}), then \code{\link[Cairo:Cairo]{Cairo::CairoPNG()}},
-and finally \code{\link[grDevices:png]{grDevices::png()}}. This is in order of quality of
-output. Notably, plain \code{png} output on Linux and Windows may not
-antialias some point shapes, resulting in poor quality output.
-
-In some cases, \code{Cairo()} provides output that looks worse than
-\code{png()}. To disable Cairo output for an app, use
-\code{options(shiny.usecairo=FALSE)}.
 }

man/reactlog.Rd

@@ -51,11 +51,11 @@ of the source code of your reactive expressions and observers.
 }
 \section{Functions}{
 \itemize{
-\item \code{reactlog}: Return a list of reactive information.  Can be used in conjunction with
+\item \code{reactlog()}: Return a list of reactive information.  Can be used in conjunction with
 \link[reactlog:reactlog_show]{reactlog::reactlog_show} to later display the reactlog graph.
 
-\item \code{reactlogShow}: Display a full reactlog graph for all sessions.
+\item \code{reactlogShow()}: Display a full reactlog graph for all sessions.
+
+\item \code{reactlogReset()}: Resets the entire reactlog stack.  Useful for debugging and removing all prior reactive history.
 
-\item \code{reactlogReset}: Resets the entire reactlog stack.  Useful for debugging and removing all prior reactive history.
 }}
-

man/reexports.Rd

@@ -52,6 +52,6 @@ below to see their documentation.
 \describe{
   \item{fastmap}{\code{\link[fastmap:key_missing]{is.key_missing}}, \code{\link[fastmap]{key_missing}}}
 
-  \item{htmltools}{\code{\link[htmltools]{HTML}}, \code{\link[htmltools:builder]{a}}, \code{\link[htmltools:builder]{br}}, \code{\link[htmltools:builder]{code}}, \code{\link[htmltools:builder]{div}}, \code{\link[htmltools:builder]{em}}, \code{\link[htmltools:builder]{h1}}, \code{\link[htmltools:builder]{h2}}, \code{\link[htmltools:builder]{h3}}, \code{\link[htmltools:builder]{h4}}, \code{\link[htmltools:builder]{h5}}, \code{\link[htmltools:builder]{h6}}, \code{\link[htmltools:builder]{hr}}, \code{\link[htmltools]{htmlTemplate}}, \code{\link[htmltools:builder]{img}}, \code{\link[htmltools:include]{includeCSS}}, \code{\link[htmltools:include]{includeHTML}}, \code{\link[htmltools:include]{includeMarkdown}}, \code{\link[htmltools:include]{includeScript}}, \code{\link[htmltools:include]{includeText}}, \code{\link[htmltools:singleton]{is.singleton}}, \code{\link[htmltools:builder]{p}}, \code{\link[htmltools:builder]{pre}}, \code{\link[htmltools]{singleton}}, \code{\link[htmltools:builder]{span}}, \code{\link[htmltools:builder]{strong}}, \code{\link[htmltools]{suppressDependencies}}, \code{\link[htmltools:builder]{tag}}, \code{\link[htmltools]{tagAppendAttributes}}, \code{\link[htmltools]{tagAppendChild}}, \code{\link[htmltools:tagAppendChild]{tagAppendChildren}}, \code{\link[htmltools:tagAppendAttributes]{tagGetAttribute}}, \code{\link[htmltools:tagAppendAttributes]{tagHasAttribute}}, \code{\link[htmltools]{tagList}}, \code{\link[htmltools:tagAppendChild]{tagSetChildren}}, \code{\link[htmltools:builder]{tags}}, \code{\link[htmltools]{validateCssUnit}}, \code{\link[htmltools]{withTags}}}
+  \item{htmltools}{\code{\link[htmltools:builder]{a}}, \code{\link[htmltools:builder]{br}}, \code{\link[htmltools:builder]{code}}, \code{\link[htmltools:builder]{div}}, \code{\link[htmltools:builder]{em}}, \code{\link[htmltools:builder]{h1}}, \code{\link[htmltools:builder]{h2}}, \code{\link[htmltools:builder]{h3}}, \code{\link[htmltools:builder]{h4}}, \code{\link[htmltools:builder]{h5}}, \code{\link[htmltools:builder]{h6}}, \code{\link[htmltools:builder]{hr}}, \code{\link[htmltools]{HTML}}, \code{\link[htmltools]{htmlTemplate}}, \code{\link[htmltools:builder]{img}}, \code{\link[htmltools:include]{includeCSS}}, \code{\link[htmltools:include]{includeHTML}}, \code{\link[htmltools:include]{includeMarkdown}}, \code{\link[htmltools:include]{includeScript}}, \code{\link[htmltools:include]{includeText}}, \code{\link[htmltools:singleton]{is.singleton}}, \code{\link[htmltools:builder]{p}}, \code{\link[htmltools:builder]{pre}}, \code{\link[htmltools]{singleton}}, \code{\link[htmltools:builder]{span}}, \code{\link[htmltools:builder]{strong}}, \code{\link[htmltools]{suppressDependencies}}, \code{\link[htmltools:builder]{tag}}, \code{\link[htmltools]{tagAppendAttributes}}, \code{\link[htmltools]{tagAppendChild}}, \code{\link[htmltools:tagAppendChild]{tagAppendChildren}}, \code{\link[htmltools:tagAppendAttributes]{tagGetAttribute}}, \code{\link[htmltools:tagAppendAttributes]{tagHasAttribute}}, \code{\link[htmltools]{tagList}}, \code{\link[htmltools:builder]{tags}}, \code{\link[htmltools:tagAppendChild]{tagSetChildren}}, \code{\link[htmltools]{validateCssUnit}}, \code{\link[htmltools]{withTags}}}
 }}
 

man/registerInputHandler.Rd

@@ -51,9 +51,9 @@ registerInputHandler("mypackage.validint", function(x, shinysession, name) {
 })
 
 ## On the Javascript side, the associated input binding must have a corresponding getType method:
-getType: function(el) {
-  return "mypackage.validint";
-}
+# getType: function(el) {
+#   return "mypackage.validint";
+# }
 
 }
 }

man/renderCachedPlot.Rd

@@ -37,7 +37,7 @@ information on the default sizing policy.}
 (the default), \code{"session"}, or a cache object like a
 \code{\link[cachem:cache_disk]{cachem::cache_disk()}}. See the Cache Scoping section for more information.}
 
-\item{...}{Arguments to be passed through to \code{\link[grDevices:png]{grDevices::png()}}.
+\item{...}{Arguments to be passed through to \code{\link[=plotPNG]{plotPNG()}}.
 These can be used to set the width, height, background color, etc.}
 
 \item{alt}{Alternate text for the HTML \verb{<img>} tag if it cannot be displayed
@@ -219,7 +219,7 @@ shinyOptions(cache = cachem::cache_mem(max_size = 20e6, max_age = 3600))
 # At the top of app.R, this set the application-scoped cache to be a disk
 # cache that can be shared among multiple concurrent R processes, and is
 # deleted when the system reboots.
-shinyOptions(cache = cachem::cache_disk(file.path(dirname(tempdir()), "myapp-cache"))
+shinyOptions(cache = cachem::cache_disk(file.path(dirname(tempdir()), "myapp-cache")))
 
 # At the top of app.R, this set the application-scoped cache to be a disk
 # cache that can be shared among multiple concurrent R processes, and

man/renderDataTable.Rd

@@ -63,7 +63,9 @@ call to \code{dataTableOutput()} when \code{renderDataTable()} is used
 in an interactive R Markdown document.}
 }
 \description{
-\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#superseded}{\figure{lifecycle-superseded.svg}{options: alt='[Superseded]'}}}{\strong{[Superseded]}} Please use \code{\link[DT:renderDataTable]{DT::renderDataTable()}}. (Shiny 0.11.1)
+\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#superseded}{\figure{lifecycle-superseded.svg}{options: alt='[Superseded]'}}}{\strong{[Superseded]}} Please use
+\href{https://rstudio.github.io/DT/shiny.html}{\code{DT::renderDataTable()}}.
+(Shiny 0.11.1)
 
 Makes a reactive version of the given function that returns a data frame (or
 matrix), which will be rendered with the \href{https://datatables.net}{DataTables}

man/renderPlot.Rd

@@ -35,10 +35,10 @@ When rendering an inline plot, you must provide numeric values (in pixels)
 to both \code{width} and \code{height}.}
 
 \item{res}{Resolution of resulting plot, in pixels per inch. This value is
-passed to \code{\link[grDevices:png]{grDevices::png()}}. Note that this affects the resolution of PNG
+passed to \code{\link[=plotPNG]{plotPNG()}}. Note that this affects the resolution of PNG
 rendering in R; it won't change the actual ppi of the browser.}
 
-\item{...}{Arguments to be passed through to \code{\link[grDevices:png]{grDevices::png()}}.
+\item{...}{Arguments to be passed through to \code{\link[=plotPNG]{plotPNG()}}.
 These can be used to set the width, height, background color, etc.}
 
 \item{alt}{Alternate text for the HTML \verb{<img>} tag if it cannot be displayed

man/req.Rd

@@ -25,26 +25,30 @@ nor displayed in the Shiny app's UI).
 \details{
 The \code{req} function was designed to be used in one of two ways. The first
 is to call it like a statement (ignoring its return value) before attempting
-operations using the required values:\preformatted{rv <- reactiveValues(state = FALSE)
+operations using the required values:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{rv <- reactiveValues(state = FALSE)
 r <- reactive(\{
   req(input$a, input$b, rv$state)
   # Code that uses input$a, input$b, and/or rv$state...
 \})
-}
+}\if{html}{\out{</div>}}
 
 In this example, if \code{r()} is called and any of \code{input$a},
 \code{input$b}, and \code{rv$state} are \code{NULL}, \code{FALSE}, \code{""},
 etc., then the \code{req} call will trigger an error that propagates all the
 way up to whatever render block or observer is executing.
 
-The second is to use it to wrap an expression that must be truthy:\preformatted{output$plot <- renderPlot(\{
+The second is to use it to wrap an expression that must be truthy:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{output$plot <- renderPlot(\{
   if (req(input$plotType) == "histogram") \{
     hist(dataset())
   \} else if (input$plotType == "scatter") \{
     qplot(dataset(), aes(x = x, y = y))
   \}
 \})
-}
+}\if{html}{\out{</div>}}
 
 In this example, \code{req(input$plotType)} first checks that
 \code{input$plotType} is truthy, and if so, returns it. This is a convenient

man/runApp.Rd

@@ -37,7 +37,7 @@ ports will be tried.}
 
 \item{launch.browser}{If true, the system's default web browser will be
 launched automatically after the app is started. Defaults to true in
-interactive sessions only. This value of this parameter can also be a
+interactive sessions only. The value of this parameter can also be a
 function to call with the application's URL.}
 
 \item{host}{The IPv4 address that the application should listen on. Defaults

man/runUrl.Rd

@@ -13,7 +13,7 @@ runGist(gist, destdir = NULL, ...)
 runGitHub(
   repo,
   username = getOption("github.user"),
-  ref = "master",
+  ref = "HEAD",
   subdir = NULL,
   destdir = NULL,
   ...
@@ -47,7 +47,8 @@ all valid values.}
 \code{"username/repo"}, \code{username} will be taken from \code{repo}.}
 
 \item{ref}{Desired git reference. Could be a commit, tag, or branch name.
-Defaults to \code{"master"}.}
+Defaults to \code{"HEAD"}, which means the default branch on GitHub, typically
+\code{"main"} or \code{"master"}.}
 }
 \description{
 \code{runUrl()} downloads and launches a Shiny application that is hosted at
@@ -62,10 +63,10 @@ respectively.
 \examples{
 ## Only run this example in interactive R sessions
 if (interactive()) {
-  runUrl('https://github.com/rstudio/shiny_example/archive/master.tar.gz')
+  runUrl('https://github.com/rstudio/shiny_example/archive/main.tar.gz')
 
   # Can run an app from a subdirectory in the archive
-  runUrl("https://github.com/rstudio/shiny_example/archive/master.zip",
+  runUrl("https://github.com/rstudio/shiny_example/archive/main.zip",
     subdir = "inst/shinyapp/")
 }
 ## Only run this example in interactive R sessions

man/session.Rd

@@ -96,9 +96,10 @@ The equivalent of hitting the browser's Reload button. Only works if the
 session is actually connected.
 }
 \item{request}{
-An environment that implements the Rook specification for HTTP requests.
-This is the request that was used to initiate the websocket connection
-(as opposed to the request that downloaded the web page for the app).
+An environment that implements the \href{https://github.com/jeffreyhorner/Rook#the-environment}{Rook specification} for
+HTTP requests. This is the request that was used to initiate the websocket
+connection (as opposed to the request that downloaded the web page for the
+app).
 }
 \item{userData}{
 An environment for app authors and module/package authors to store whatever

man/shinyAppTemplate.Rd

@@ -10,7 +10,7 @@ shinyAppTemplate(path = NULL, examples = "default", dryrun = FALSE)
 \item{path}{Path to create new shiny application template.}
 
 \item{examples}{Either one of "default", "ask", "all", or any combination of
-"app", "rdir", "module", "shinytest", and "testthat". In an
+"app", "rdir", "module", and "tests". In an
 interactive session, "default" falls back to "ask"; in a non-interactive
 session, "default" falls back to "all". With "ask", this function will
 prompt the user to select which template items will be added to the new app
@@ -25,30 +25,31 @@ This function populates a directory with files for a Shiny application.
 }
 \details{
 In an interactive R session, this function will, by default, prompt the user
-to select which components to add to the application. Choices are\preformatted{1: All
+to select which components to add to the application. Choices are
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{1: All
 2: app.R              : Main application file
 3: R/example.R        : Helper file with R code
 4: R/example-module.R : Example module
-5: tests/shinytest/   : Tests using the shinytest package
-6: tests/testthat/    : Tests using the testthat package
-}
+5: tests/testthat/    : Tests using the testthat and shinytest2 package
+}\if{html}{\out{</div>}}
 
 If option 1 is selected, the full example application including the
-following files and directories is created:\preformatted{appdir/
+following files and directories is created:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{appdir/
 |- app.R
 |- R
 |   |- example-module.R
 |   `- example.R
 `- tests
-    |- shinytest.R
-    |- shinytest
-    |   `- mytest.R
     |- testthat.R
     `- testthat
         |- test-examplemodule.R
         |- test-server.R
+        |- test-shinytest2.R
         `- test-sort.R
-}
+}\if{html}{\out{</div>}}
 
 Some notes about these files:
 \itemize{
@@ -62,15 +63,15 @@ and the second contains code for module created by the
 \item \verb{tests/} contains various tests for the application. You may
 choose to use or remove any of them. They can be executed by the
 \code{\link[=runTests]{runTests()}} function.
-\item \code{tests/shinytest.R} is a test runner for test files in the
-\verb{tests/shinytest/} directory.
-\item \code{tests/shinytest/mytest.R} is a test that uses the
-\href{https://rstudio.github.io/shinytest/}{shinytest} package to do
-snapshot-based testing.
 \item \code{tests/testthat.R} is a test runner for test files in the
-\verb{tests/testthat/} directory using the \href{https://testthat.r-lib.org/}{testthat} package.
+\verb{tests/testthat/} directory using the
+\href{https://rstudio.github.io/shinytest2/reference/test_app.html}{shinytest2}
+package.
 \item \code{tests/testthat/test-examplemodule.R} is a test for an application's module server function.
 \item \code{tests/testthat/test-server.R} is a test for the application's server code
+\item \code{tests/testthat/test-shinytest2.R} is a test that uses the
+\href{https://rstudio.github.io/shinytest2/}{shinytest2} package to do
+snapshot-based testing.
 \item \code{tests/testthat/test-sort.R} is a test for a supporting function in the \verb{R/} directory.
 }
 }

man/shinyOptions.Rd

@@ -73,6 +73,10 @@ then jQuery 3.6.0 is used.}
 numbers to JSON format to send to the client web browser.}
 \item{shiny.launch.browser (defaults to \code{interactive()})}{A boolean which controls the default behavior
 when an app is run. See \code{\link[=runApp]{runApp()}} for more information.}
+\item{shiny.mathjax.url (defaults to \code{"https://mathjax.rstudio.com/latest/MathJax.js"})}{
+The URL that should be used to load MathJax, via \code{\link[=withMathJax]{withMathJax()}}.}
+\item{shiny.mathjax.config (defaults to \code{"config=TeX-AMS-MML_HTMLorMML"})}{The querystring
+used to load MathJax, via \code{\link[=withMathJax]{withMathJax()}}.}
 \item{shiny.maxRequestSize (defaults to 5MB)}{This is a number which specifies the maximum
 web request size, which serves as a size limit for file uploads.}
 \item{shiny.minified (defaults to \code{TRUE})}{By default
@@ -104,6 +108,9 @@ should only be used for debugging or demonstrations of reactivity at the
 console.}
 \item{shiny.testmode (defaults to \code{FALSE})}{If \code{TRUE}, then various features for testing Shiny
 applications are enabled.}
+\item{shiny.snapshotsortc (defaults to \code{FALSE})}{If \code{TRUE}, test snapshot keys
+for \pkg{shinytest} will be sorted consistently using the C locale.  Snapshots
+retrieved by \pkg{shinytest2} will always sort using the C locale.}
 \item{shiny.trace (defaults to \code{FALSE})}{Print messages sent between the R server and the web
 browser client to the R console. This is useful for debugging. Possible
 values are \code{"send"} (only print messages sent to the client),
@@ -112,9 +119,10 @@ values are \code{"send"} (only print messages sent to the client),
 messages).}
 \item{shiny.autoload.r (defaults to \code{TRUE})}{If \code{TRUE}, then the R/
 of a shiny app will automatically be sourced.}
-\item{shiny.usecairo (defaults to \code{TRUE})}{This is used to disable graphical rendering by the
-Cairo package, if it is installed. See \code{\link[=plotPNG]{plotPNG()}} for more
-information.}
+\item{shiny.useragg (defaults to \code{TRUE})}{Set to \code{FALSE} to prevent PNG rendering via the
+ragg package. See \code{\link[=plotPNG]{plotPNG()}} for more information.}
+\item{shiny.usecairo (defaults to \code{TRUE})}{Set to \code{FALSE} to prevent PNG rendering via the
+Cairo package. See \code{\link[=plotPNG]{plotPNG()}} for more information.}
 \item{shiny.devmode (defaults to \code{NULL})}{Option to enable Shiny Developer Mode. When set,
 different default \code{getOption(key)} values will be returned. See \code{\link[=devmode]{devmode()}} for more details.}
 }

man/shinyServer.Rd

@@ -31,7 +31,7 @@ the Shiny application's page. It must take an \code{input} and an
 optional \code{session} parameter, which is used when greater control is
 needed.
 
-See the \href{https://rstudio.github.io/shiny/tutorial/}{tutorial} for more
+See the \href{https://shiny.rstudio.com/tutorial/}{tutorial} for more
 on how to write a server function.
 }
 \examples{

man/tabPanel.Rd

@@ -29,12 +29,12 @@ Create a tab panel
 }
 \section{Functions}{
 \itemize{
-\item \code{tabPanel}: Create a tab panel that can be included within a \code{\link[=tabsetPanel]{tabsetPanel()}} or a \code{\link[=navbarPage]{navbarPage()}}.
+\item \code{tabPanel()}: Create a tab panel that can be included within a \code{\link[=tabsetPanel]{tabsetPanel()}} or a \code{\link[=navbarPage]{navbarPage()}}.
 
-\item \code{tabPanelBody}: Create a tab panel that drops the title argument.
+\item \code{tabPanelBody()}: Create a tab panel that drops the title argument.
 This function should be used within \code{tabsetPanel(type = "hidden")}. See \code{\link[=tabsetPanel]{tabsetPanel()}} for example usage.
-}}
 
+}}
 \examples{
 # Show a tabset that includes a plot, summary, and
 # table view of the generated distribution

man/updateCheckboxGroupInput.Rd

@@ -33,17 +33,7 @@ types (such as logicals and numbers) will be coerced to strings.}
 
 \item{inline}{If \code{TRUE}, render the choices inline (i.e. horizontally)}
 
-\item{choiceNames}{List of names and values, respectively,
-that are displayed to the user in the app and correspond to the each
-choice (for this reason, \code{choiceNames} and \code{choiceValues}
-must have the same length). If either of these arguments is
-provided, then the other \emph{must} be provided and \code{choices}
-\emph{must not} be provided. The advantage of using both of these over
-a named list for \code{choices} is that \code{choiceNames} allows any
-type of UI object to be passed through (tag objects, icons, HTML code,
-...), instead of just simple text. See Examples.}
-
-\item{choiceValues}{List of names and values, respectively,
+\item{choiceNames, choiceValues}{List of names and values, respectively,
 that are displayed to the user in the app and correspond to the each
 choice (for this reason, \code{choiceNames} and \code{choiceValues}
 must have the same length). If either of these arguments is

man/updateRadioButtons.Rd

@@ -35,16 +35,7 @@ use \code{character(0)}.}
 
 \item{inline}{If \code{TRUE}, render the choices inline (i.e. horizontally)}
 
-\item{choiceNames}{List of names and values, respectively, that
-are displayed to the user in the app and correspond to the each choice (for
-this reason, \code{choiceNames} and \code{choiceValues} must have the same length).
-If either of these arguments is provided, then the other \emph{must} be provided
-and \code{choices} \emph{must not} be provided. The advantage of using both of these
-over a named list for \code{choices} is that \code{choiceNames} allows any type of UI
-object to be passed through (tag objects, icons, HTML code, ...), instead
-of just simple text. See Examples.}
-
-\item{choiceValues}{List of names and values, respectively, that
+\item{choiceNames, choiceValues}{List of names and values, respectively, that
 are displayed to the user in the app and correspond to the each choice (for
 this reason, \code{choiceNames} and \code{choiceValues} must have the same length).
 If either of these arguments is provided, then the other \emph{must} be provided

man/updateSliderInput.Rd

@@ -29,10 +29,7 @@ updateSliderInput(
 create a regular slider; a length two vector will create a double-ended
 range slider. Must lie between \code{min} and \code{max}.}
 
-\item{min}{The minimum and maximum values (inclusive) that can be
-selected.}
-
-\item{max}{The minimum and maximum values (inclusive) that can be
+\item{min, max}{The minimum and maximum values (inclusive) that can be
 selected.}
 
 \item{step}{Specifies the interval between each selectable value on the

man/validate.Rd

@@ -55,10 +55,12 @@ can create your own validation test functions. A passing test should return
 to display to the user, or if the failure should happen silently, \code{FALSE}.
 
 Alternatively you can use \code{validate()} within an \code{if} statement, which is
-particularly useful for more complex conditions:\preformatted{if (input$x < 0 && input$choice == "positive") \{
+particularly useful for more complex conditions:
+
+\if{html}{\out{<div class="sourceCode">}}\preformatted{if (input$x < 0 && input$choice == "positive") \{
   validate("If choice is positive then x must be greater than 0")
 \}
-}
+}\if{html}{\out{</div>}}
 }
 
 \examples{

man/varSelectInput.Rd

@@ -76,10 +76,10 @@ value when it is a single choice input and the empty string is not in the
 The resulting server \code{input} value will be returned as:
 \itemize{
 \item A symbol if \code{multiple = FALSE}. The \code{input} value should be
-used with rlang's \code{\link[rlang:bang-bang]{rlang::!!()}}. For example,
+used with rlang's \code{\link[rlang:injection-operator]{rlang::!!()}}. For example,
 \code{ggplot2::aes(!!input$variable)}.
 \item A list of symbols if \code{multiple = TRUE}. The \code{input} value
-should be used with rlang's \code{\link[rlang:bang-bang]{rlang::!!!()}} to expand
+should be used with rlang's \code{\link[rlang:splice-operator]{rlang::!!!()}} to expand
 the symbol list as individual arguments. For example,
 \code{dplyr::select(mtcars, !!!input$variabls)} which is
 equivalent to \code{dplyr::select(mtcars, !!input$variabls[[1]], !!input$variabls[[2]], ..., !!input$variabls[[length(input$variabls)]])}.

package.json

@@ -3,7 +3,7 @@
   "homepage": "https://shiny.rstudio.com",
   "repository": "github:rstudio/shiny",
   "name": "@types/rstudio-shiny",
-  "version": "1.6.0-alpha.9022",
+  "version": "1.7.2-alpha.9000",
   "license": "GPL-3.0-only",
   "main": "",
   "browser": "",
@@ -46,7 +46,8 @@
     "@typescript-eslint/parser": "^4.25.0",
     "autoprefixer": "^10.2.6",
     "bootstrap-datepicker": "1.9.0",
-    "browserslist": "^4.16.6",
+    "browserslist": "^4.19.1",
+    "caniuse-lite": "^1.0.30001312",
     "core-js": "^3.13.0",
     "esbuild": "^0.12.4",
     "esbuild-plugin-babel": "https://github.com/schloerke/esbuild-plugin-babel#patch-2",

revdep/README.md

@@ -1,944 +1,12 @@
-# Platform
-
-|field    |value                        |
-|:--------|:----------------------------|
-|version  |R version 4.0.0 (2020-04-24) |
-|os       |macOS Catalina 10.15.5       |
-|system   |x86_64, darwin17.0           |
-|ui       |X11                          |
-|language |(EN)                         |
-|collate  |en_US.UTF-8                  |
-|ctype    |en_US.UTF-8                  |
-|tz       |America/New_York             |
-|date     |2020-06-19                   |
-
-# Dependencies
-
-|package |old     |new   |Δ  |
-|:-------|:-------|:-----|:--|
-|shiny   |1.4.0.2 |1.5.0 |*  |
-
 # Revdeps
 
-## Failed to check (3)
+## Failed to check (5)
 
-|package                                |version |error |warning |note |
-|:--------------------------------------|:-------|:-----|:-------|:----|
-|[frailtypack](failures.md#frailtypack) |3.3.0   |1     |        |     |
-|[Rariant](failures.md#rariant)         |1.24.0  |1     |        |     |
-|[skeleSim](failures.md#skelesim)       |0.9.8   |1     |        |     |
-
-## New problems (2)
-
-|package                                      |version |error  |warning |note     |
-|:--------------------------------------------|:-------|:------|:-------|:--------|
-|[bsplus](problems.md#bsplus)                 |0.1.1   |__+1__ |        |1        |
-|[RforProteomics](problems.md#rforproteomics) |1.26.0  |       |1       |2 __+1__ |
-
-## All (902)
-
-|package                                                                  |version    |error  |warning |note     |
-|:------------------------------------------------------------------------|:----------|:------|:-------|:--------|
-|[aaSEA](problems.md#aasea)                                               |1.1.0      |       |        |1        |
-|ABACUS                                                                   |1.0.0      |       |        |         |
-|abstractr                                                                |0.1.0      |       |        |         |
-|[ADAMgui](problems.md#adamgui)                                           |1.4.0      |       |        |2        |
-|[adapr](problems.md#adapr)                                               |2.0.0      |       |        |1        |
-|AdaptGauss                                                               |1.5.6      |       |        |         |
-|adaptiveGPCA                                                             |0.1.2      |       |        |         |
-|addinslist                                                               |0.3        |       |        |         |
-|addinsOutline                                                            |0.1.6      |       |        |         |
-|[adegenet](problems.md#adegenet)                                         |2.1.3      |       |        |1        |
-|[adepro](problems.md#adepro)                                             |3.0.0      |       |        |1        |
-|adespatial                                                               |0.3-8      |       |        |         |
-|[AdhereRViz](problems.md#adhererviz)                                     |0.1.0      |       |        |1        |
-|AFheritability                                                           |0.1.0      |       |        |         |
-|AFM                                                                      |1.2.6      |       |        |         |
-|ahp                                                                      |0.2.12     |       |        |         |
-|airGRteaching                                                            |0.2.8.69   |       |        |         |
-|[alevinQC](problems.md#alevinqc)                                         |1.4.0      |       |        |1        |
-|AMModels                                                                 |0.1.4      |       |        |         |
-|AmpGram                                                                  |1.0        |       |        |         |
-|[AMPLE](problems.md#ample)                                               |0.0.2      |       |        |1        |
-|AmyloGram                                                                |1.1        |       |        |         |
-|[analysisPipelines](problems.md#analysispipelines)                       |1.0.2      |       |        |1        |
-|[animalcules](problems.md#animalcules)                                   |1.4.0      |-1     |        |4        |
-|[animaltracker](problems.md#animaltracker)                               |0.1.0      |       |        |1        |
-|[animint2](problems.md#animint2)                                         |2019.7.3   |2      |        |2        |
-|aniview                                                                  |0.1.0      |       |        |         |
-|[ANOVAIREVA](problems.md#anovaireva)                                     |0.1.0      |       |        |1        |
-|ANOVAreplication                                                         |1.1.4      |       |        |         |
-|[ANOVAShiny](problems.md#anovashiny)                                     |0.1.0      |       |        |1        |
-|antaresRead                                                              |2.2.5      |       |        |         |
-|antaresViz                                                               |0.15.2     |       |        |         |
-|AnthropMMD                                                               |3.0.1      |       |        |         |
-|[antitrust](problems.md#antitrust)                                       |0.99.11    |       |        |1        |
-|aos                                                                      |0.1.0      |       |        |         |
-|[apexcharter](problems.md#apexcharter)                                   |0.1.4      |       |        |1        |
-|[appreci8R](problems.md#appreci8r)                                       |1.6.0      |1      |        |         |
-|[ArchaeoPhases](problems.md#archaeophases)                               |1.4.5      |       |        |1        |
-|archivist                                                                |2.3.4      |       |        |         |
-|[arena2r](problems.md#arena2r)                                           |1.0.0      |       |        |1        |
-|argonDash                                                                |0.2.0      |       |        |         |
-|argonR                                                                   |0.2.0      |       |        |         |
-|ARPobservation                                                           |1.2.0      |       |        |         |
-|arulesViz                                                                |1.3-3      |       |        |         |
-|asciiSetupReader                                                         |2.3.1      |       |        |         |
-|[ASSOCShiny](problems.md#assocshiny)                                     |0.1.0      |       |        |1        |
-|[AUCell](problems.md#aucell)                                             |1.10.0     |       |        |4        |
-|auth0                                                                    |0.2.1      |       |        |         |
-|AutoDeskR                                                                |0.1.3      |       |        |         |
-|autoshiny                                                                |0.0.2      |       |        |         |
-|[autoTS](problems.md#autots)                                             |0.9.11     |       |        |1        |
-|AzureAuth                                                                |1.2.4      |       |        |         |
-|azuremlsdk                                                               |0.6.85     |       |        |         |
-|backpipe                                                                 |0.2.3      |       |        |         |
-|bairt                                                                    |0.1.2      |       |        |         |
-|baRcodeR                                                                 |0.1.5      |       |        |         |
-|[BARIS](problems.md#baris)                                               |1.1.1      |       |        |1        |
-|basictabler                                                              |0.3.1      |       |        |         |
-|[BatchQC](problems.md#batchqc)                                           |1.16.0     |1      |        |1        |
-|[BayesBD](problems.md#bayesbd)                                           |1.2        |1      |        |         |
-|BayesianFROC                                                             |0.2.3      |       |        |         |
-|[BayesianNetwork](problems.md#bayesiannetwork)                           |0.1.5      |       |        |1        |
-|[BayesNetBP](problems.md#bayesnetbp)                                     |1.5.2      |       |        |1        |
-|[BBEST](problems.md#bbest)                                               |0.1-6      |1      |        |         |
-|[BCEA](problems.md#bcea)                                                 |2.3-1.1    |       |        |1        |
-|[bdchecks](problems.md#bdchecks)                                         |0.1.7      |       |        |1        |
-|[bdclean](problems.md#bdclean)                                           |0.1.15     |       |        |1        |
-|bdDwC                                                                    |0.1.15     |       |        |         |
-|[bde](problems.md#bde)                                                   |1.0.1      |       |        |1        |
-|BDEsize                                                                  |1.2        |       |        |         |
-|BDP2                                                                     |0.1.3      |       |        |         |
-|[bea.R](problems.md#bear)                                                |1.0.6      |       |        |1        |
-|BEACH                                                                    |1.3.1      |       |        |         |
-|[beanz](problems.md#beanz)                                               |2.4        |       |        |3        |
-|beats                                                                    |0.1.1      |       |        |         |
-|[bestSDP](problems.md#bestsdp)                                           |0.1.2      |       |        |1        |
-|[BETS](problems.md#bets)                                                 |0.4.9      |       |2       |1        |
-|[bibliometrix](problems.md#bibliometrix)                                 |3.0.2      |       |        |1        |
-|BIGL                                                                     |1.4.3      |       |        |         |
-|[bigPint](problems.md#bigpint)                                           |1.4.0      |       |        |1        |
-|[bigQueryR](problems.md#bigqueryr)                                       |0.5.0      |       |        |1        |
-|[billboarder](problems.md#billboarder)                                   |0.2.8      |       |        |1        |
-|[binovisualfields](problems.md#binovisualfields)                         |0.1.1      |       |        |1        |
-|[bioCancer](problems.md#biocancer)                                       |1.16.0     |       |1       |2        |
-|[BiocOncoTK](problems.md#bioconcotk)                                     |1.8.0      |1      |        |3        |
-|[BioInstaller](problems.md#bioinstaller)                                 |0.3.7      |       |        |1        |
-|[BioNetStat](problems.md#bionetstat)                                     |1.8.4      |       |        |4        |
-|[BIRDS](problems.md#birds)                                               |0.1        |       |        |2        |
-|[biva](problems.md#biva)                                                 |0.1.0      |       |        |1        |
-|[blkbox](problems.md#blkbox)                                             |1.0        |       |        |2        |
-|[blockCV](problems.md#blockcv)                                           |2.1.1      |       |        |1        |
-|blogdown                                                                 |0.19       |       |        |         |
-|[BLRShiny](problems.md#blrshiny)                                         |0.1.0      |       |        |1        |
-|bookdown                                                                 |0.19       |       |        |         |
-|bpbounds                                                                 |0.1.4      |       |        |         |
-|bridger2                                                                 |0.1.0      |       |        |         |
-|bs4Dash                                                                  |0.5.0      |       |        |         |
-|bSims                                                                    |0.2-1      |       |        |         |
-|[bsplus](problems.md#bsplus)                                             |0.1.1      |__+1__ |        |1        |
-|bullwhipgame                                                             |0.1.0      |       |        |         |
-|bunchr                                                                   |1.2.0      |       |        |         |
-|bupaR                                                                    |0.4.4      |       |        |         |
-|[caffsim](problems.md#caffsim)                                           |0.2.2      |       |        |1        |
-|CamelUp                                                                  |0.1.1      |       |        |         |
-|[canvasXpress](problems.md#canvasxpress)                                 |1.27.6-1   |       |        |1        |
-|[CaPO4Sim](problems.md#capo4sim)                                         |0.1.0      |       |        |1        |
-|[cartools](problems.md#cartools)                                         |0.1.0      |       |        |1        |
-|causaloptim                                                              |0.7.1      |       |        |         |
-|cbsodataR                                                                |0.4.1      |       |        |         |
-|[ChAMP](problems.md#champ)                                               |2.18.2     |1      |        |         |
-|ChannelAttributionApp                                                    |1.2        |       |        |         |
-|cheatR                                                                   |1.2.1      |       |        |         |
-|[CHETAH](problems.md#chetah)                                             |1.4.0      |       |        |2        |
-|[chipPCR](problems.md#chippcr)                                           |0.0.8-10   |       |        |1        |
-|[chromoMap](problems.md#chromomap)                                       |0.2        |       |        |1        |
-|chromVAR                                                                 |1.10.0     |       |        |         |
-|[cicerone](problems.md#cicerone)                                         |1.0.1      |       |        |1        |
-|Cite                                                                     |0.1.0      |       |        |         |
-|citr                                                                     |0.3.2      |       |        |         |
-|[cjoint](problems.md#cjoint)                                             |2.1.0      |       |        |2        |
-|CLME                                                                     |2.0-12     |       |        |         |
-|[clustDRM](problems.md#clustdrm)                                         |0.1-0      |       |        |1        |
-|[CLUSTShiny](problems.md#clustshiny)                                     |0.1.0      |       |        |1        |
-|cmsaf                                                                    |2.0.1      |-1     |        |         |
-|[CMShiny](problems.md#cmshiny)                                           |0.1.0      |       |        |1        |
-|cNORM                                                                    |1.2.3      |       |        |         |
-|[CNVPanelizer](problems.md#cnvpanelizer)                                 |1.20.0     |       |        |1        |
-|CNVScope                                                                 |3.0.9      |       |        |         |
-|[cocktailApp](problems.md#cocktailapp)                                   |0.2.1      |       |        |1        |
-|[codebook](problems.md#codebook)                                         |0.9.2      |       |        |2        |
-|[cognitoR](problems.md#cognitor)                                         |1.0.1      |       |        |1        |
-|colocr                                                                   |0.1.1      |       |        |         |
-|colorspace                                                               |1.4-1      |       |        |         |
-|colourpicker                                                             |1.0        |       |        |         |
-|compareGroups                                                            |4.4.1      |       |        |         |
-|[COMPASS](problems.md#compass)                                           |1.26.0     |       |        |3        |
-|[competitiontoolbox](problems.md#competitiontoolbox)                     |0.1.2      |       |        |1        |
-|complexity                                                               |1.1.1      |       |        |         |
-|condformat                                                               |0.9.0      |       |        |         |
-|condir                                                                   |0.1.2      |       |        |         |
-|condvis                                                                  |0.5-1      |       |        |         |
-|condvis2                                                                 |0.1.0      |       |        |         |
-|[conflr](problems.md#conflr)                                             |0.1.1      |       |        |1        |
-|convertr                                                                 |0.1        |       |        |         |
-|[CoRegNet](problems.md#coregnet)                                         |1.26.0     |       |1       |2        |
-|[corporaexplorer](problems.md#corporaexplorer)                           |0.8.2      |       |        |1        |
-|[cosinor](problems.md#cosinor)                                           |1.1        |       |        |1        |
-|countfitteR                                                              |1.0        |       |        |         |
-|[coveffectsplot](problems.md#coveffectsplot)                             |0.0.9      |       |        |1        |
-|[CRANsearcher](problems.md#cransearcher)                                 |1.0.0      |       |        |1        |
-|[crawl](problems.md#crawl)                                               |2.2.1      |       |        |1        |
-|credsubs                                                                 |1.1.0      |       |        |         |
-|[crispRdesignR](problems.md#crisprdesignr)                               |1.1.5      |       |        |1        |
-|[crisprseekplus](problems.md#crisprseekplus)                             |1.14.0     |       |        |1        |
-|cromwellDashboard                                                        |0.5.1      |       |        |         |
-|cronR                                                                    |0.4.0      |       |        |         |
-|[CrossICC](problems.md#crossicc)                                         |1.2.0      |       |        |1        |
-|[crossmeta](problems.md#crossmeta)                                       |1.14.0     |       |1       |2        |
-|crosstalk                                                                |1.1.0.1    |       |        |         |
-|crunchy                                                                  |0.3.1      |       |        |         |
-|[CSUV](problems.md#csuv)                                                 |0.1.0      |1      |        |         |
-|[CTAShiny](problems.md#ctashiny)                                         |0.1.0      |       |        |1        |
-|[ctsem](problems.md#ctsem)                                               |3.2.1      |       |        |3        |
-|ctsGE                                                                    |1.14.0     |       |        |         |
-|[CTShiny](problems.md#ctshiny)                                           |0.1.0      |       |        |1        |
-|CTTinShiny                                                               |0.1.0      |       |        |         |
-|CTTShiny                                                                 |0.1        |       |        |         |
-|cubeview                                                                 |0.2.0      |       |        |         |
-|[CVE](problems.md#cve)                                                   |1.11.2     |1      |1       |2        |
-|cydar                                                                    |1.12.0     |       |        |         |
-|CytobankAPIstats                                                         |2.0        |       |        |         |
-|d3heatmap                                                                |0.6.1.2    |       |        |         |
-|[d3Tree](problems.md#d3tree)                                             |0.2.0      |       |        |1        |
-|daqapo                                                                   |0.3.0      |       |        |         |
-|[datacheck](problems.md#datacheck)                                       |1.2.2      |       |        |2        |
-|[datadigest](problems.md#datadigest)                                     |1.0.2      |       |        |1        |
-|[dataesgobr](problems.md#dataesgobr)                                     |1.0.0      |       |        |1        |
-|datamaps                                                                 |0.0.3      |       |        |         |
-|datasets.load                                                            |1.4.0      |       |        |         |
-|daterangepicker                                                          |0.1.0      |       |        |         |
-|dccvalidator                                                             |0.2.0      |       |        |         |
-|ddpcr                                                                    |1.15       |       |        |         |
-|[debrowser](problems.md#debrowser)                                       |1.16.1     |       |        |1        |
-|deepdep                                                                  |0.2.1      |       |        |         |
-|deisotoper                                                               |0.0.7      |       |        |         |
-|[delayed](problems.md#delayed)                                           |0.3.0      |       |        |1        |
-|demoShiny                                                                |0.1        |       |        |         |
-|[DEP](problems.md#dep)                                                   |1.10.0     |       |        |1        |
-|[detzrcr](problems.md#detzrcr)                                           |0.3.0      |       |        |1        |
-|dextergui                                                                |0.2.2      |       |        |         |
-|diffr                                                                    |0.1        |       |        |         |
-|dipsaus                                                                  |0.0.7      |       |        |         |
-|[DiscoRhythm](problems.md#discorhythm)                                   |1.4.0      |       |        |2        |
-|discoveR                                                                 |1.2.4      |       |        |         |
-|disk.frame                                                               |0.3.6      |       |        |         |
-|distcomp                                                                 |1.1        |       |        |         |
-|distill                                                                  |0.8        |       |        |         |
-|distreg.vis                                                              |1.7.0      |       |        |         |
-|Distributacalcul                                                         |0.2.2      |       |        |         |
-|[diveRsity](problems.md#diversity)                                       |1.9.90     |       |        |1        |
-|DIZutils                                                                 |0.0.4      |       |        |         |
-|[DLMtool](problems.md#dlmtool)                                           |5.4.5      |       |        |1        |
-|dmdScheme                                                                |1.2        |       |        |         |
-|[Doscheda](problems.md#doscheda)                                         |1.10.0     |       |        |1        |
-|[dosedesignR](problems.md#dosedesignr)                                   |0.2.4      |       |        |1        |
-|dpcR                                                                     |0.5        |       |        |         |
-|[dplyrAssist](problems.md#dplyrassist)                                   |0.1.0      |       |        |1        |
-|dqshiny                                                                  |0.0.4      |       |        |         |
-|[dragon](problems.md#dragon)                                             |0.2.1      |       |        |1        |
-|dragulaR                                                                 |0.3.1      |       |        |         |
-|DRomics                                                                  |2.0-1      |       |        |         |
-|[dropR](problems.md#dropr)                                               |0.1        |       |        |1        |
-|DSAIDE                                                                   |0.8.3      |       |        |         |
-|DSAIRM                                                                   |0.8.2      |       |        |         |
-|DT                                                                       |0.13       |       |        |         |
-|DTAT                                                                     |0.3-4      |       |        |         |
-|[dtwclust](problems.md#dtwclust)                                         |5.5.6      |       |        |1        |
-|[DVHmetrics](problems.md#dvhmetrics)                                     |0.3.10     |       |        |1        |
-|[dynamichazard](problems.md#dynamichazard)                               |0.6.6      |       |        |1        |
-|DynNom                                                                   |5.0.1      |       |        |         |
-|Eagle                                                                    |2.2        |       |        |         |
-|eAnalytics                                                               |0.1.4      |       |        |         |
-|easySdcTable                                                             |0.5.0      |       |        |         |
-|[EBImage](problems.md#ebimage)                                           |4.30.0     |       |1       |1        |
-|ECharts2Shiny                                                            |0.2.13     |       |        |         |
-|echarts4r                                                                |0.3.2      |       |        |         |
-|edeaR                                                                    |0.8.5      |       |        |         |
-|edgebundleR                                                              |0.1.4      |       |        |         |
-|editData                                                                 |0.1.2      |       |        |         |
-|eechidna                                                                 |1.4.0      |       |        |         |
-|eemR                                                                     |1.0.1      |       |        |         |
-|EffectLiteR                                                              |0.4-4      |       |        |         |
-|[effectR](problems.md#effectr)                                           |1.0.2      |       |        |1        |
-|egor                                                                     |0.20.06    |       |        |         |
-|einet                                                                    |0.1.0      |       |        |         |
-|elaborator                                                               |1.0        |       |        |         |
-|[elementR](problems.md#elementr)                                         |1.3.6      |1      |        |         |
-|[embryogrowth](problems.md#embryogrowth)                                 |7.6        |       |        |1        |
-|[EML](problems.md#eml)                                                   |2.0.2      |       |        |1        |
-|EMMAgeo                                                                  |0.9.7      |       |        |         |
-|EMSaov                                                                   |2.3        |       |        |         |
-|emuR                                                                     |2.1.0      |       |        |         |
-|[ENCODExplorer](problems.md#encodexplorer)                               |2.14.0     |       |        |1        |
-|[enviGCMS](problems.md#envigcms)                                         |0.6.6      |       |        |1        |
-|enviPick                                                                 |1.5        |       |        |         |
-|[epicontacts](problems.md#epicontacts)                                   |1.1.0      |       |        |1        |
-|epimdr                                                                   |0.6-5      |       |        |         |
-|EpiModel                                                                 |1.8.0      |       |        |         |
-|[EpiSignalDetection](problems.md#episignaldetection)                     |0.1.1      |       |        |1        |
-|[epivizrChart](problems.md#epivizrchart)                                 |1.10.0     |       |        |2        |
-|eq5d                                                                     |0.7.1      |       |        |         |
-|[erma](problems.md#erma)                                                 |1.4.0      |       |        |2        |
-|ERSA                                                                     |0.1.1      |       |        |         |
-|eSDM                                                                     |0.3.4      |       |        |         |
-|eseis                                                                    |0.5.0      |       |        |         |
-|esquisse                                                                 |0.3.0      |       |        |         |
-|EurosarcBayes                                                            |1.1        |       |        |         |
-|evaluator                                                                |0.4.2      |       |        |         |
-|EventDetectGUI                                                           |0.3.0      |       |        |         |
-|[EventStudy](problems.md#eventstudy)                                     |0.36       |       |        |2        |
-|evobiR                                                                   |1.1        |       |        |         |
-|excelR                                                                   |0.4.0      |       |        |         |
-|ExPanDaR                                                                 |0.5.1      |       |        |         |
-|explor                                                                   |0.3.6      |       |        |         |
-|explore                                                                  |0.5.5      |       |        |         |
-|ExploreModelMatrix                                                       |1.0.1      |       |        |         |
-|[ezplot](problems.md#ezplot)                                             |0.6.1      |       |        |1        |
-|Factoshiny                                                               |2.2        |       |        |         |
-|fanplot                                                                  |3.4.2      |       |        |         |
-|[farrell](problems.md#farrell)                                           |0.2.0      |       |        |1        |
-|[FastqCleaner](problems.md#fastqcleaner)                                 |1.6.0      |       |        |2        |
-|[FELLA](problems.md#fella)                                               |1.8.0      |1      |        |1        |
-|findviews                                                                |0.1.3      |       |        |         |
-|fingertipsR                                                              |1.0.4      |       |        |         |
-|[firebase](problems.md#firebase)                                         |0.1.0      |       |        |1        |
-|[fitteR](problems.md#fitter)                                             |0.1.0      |       |        |1        |
-|[fitur](problems.md#fitur)                                               |0.6.1      |       |        |1        |
-|flacco                                                                   |1.8        |       |        |         |
-|[flair](problems.md#flair)                                               |0.0.2      |       |        |1        |
-|flexdashboard                                                            |0.5.1.1    |       |        |         |
-|[flora](problems.md#flora)                                               |0.3.4      |       |        |1        |
-|[flowAI](problems.md#flowai)                                             |1.18.2     |       |        |1        |
-|[flowcatchR](problems.md#flowcatchr)                                     |1.22.0     |       |        |2        |
-|flowPloidy                                                               |1.14.0     |       |        |         |
-|formatR                                                                  |1.7        |       |        |         |
-|formattable                                                              |0.2.0.1    |       |        |         |
-|[frailtypack](failures.md#frailtypack)                                   |3.3.0      |1      |        |         |
-|FreqProf                                                                 |0.0.1      |       |        |         |
-|frequency                                                                |0.4.0      |       |        |         |
-|fresh                                                                    |0.2.0      |       |        |         |
-|[FSK2R](problems.md#fsk2r)                                               |0.1.1      |1      |        |         |
-|[FunChIP](problems.md#funchip)                                           |1.14.0     |1      |        |         |
-|FuzzyR                                                                   |2.3        |       |        |         |
-|G2Sd                                                                     |2.1.5      |       |        |         |
-|[g3viz](problems.md#g3viz)                                               |1.1.2      |       |        |1        |
-|[GA4GHshiny](problems.md#ga4ghshiny)                                     |1.10.0     |1      |        |1        |
-|[gamesGA](problems.md#gamesga)                                           |1.1.3.7    |       |        |1        |
-|[gastempt](problems.md#gastempt)                                         |0.5.0      |       |        |3        |
-|gazepath                                                                 |1.3        |       |        |         |
-|[GDCRNATools](problems.md#gdcrnatools)                                   |1.8.0      |       |        |3        |
-|GDINA                                                                    |2.8.0      |       |        |         |
-|genBaRcode                                                               |1.2.3      |       |        |         |
-|[genBart](problems.md#genbart)                                           |1.0.1      |       |        |1        |
-|[GeneNetworkBuilder](problems.md#genenetworkbuilder)                     |1.30.0     |       |        |1        |
-|GeneralizedUmatrix                                                       |1.1.9      |       |        |         |
-|[GenEst](problems.md#genest)                                             |1.4.4      |       |        |1        |
-|[GeneTonic](problems.md#genetonic)                                       |1.0.1      |       |        |2        |
-|genogeographer                                                           |0.1.19     |       |        |         |
-|[GenomicScores](problems.md#genomicscores)                               |2.0.0      |1      |        |4        |
-|genTS                                                                    |0.1.3      |       |        |         |
-|geodrawr                                                                 |1.0.1      |       |        |         |
-|[GerminaR](problems.md#germinar)                                         |1.4.2      |       |        |1        |
-|gestate                                                                  |1.4.0      |       |        |         |
-|getTBinR                                                                 |0.7.1      |       |        |         |
-|gfonts                                                                   |0.1.1      |       |        |         |
-|[ggedit](problems.md#ggedit)                                             |0.3.1      |       |        |1        |
-|[ggExtra](problems.md#ggextra)                                           |0.9        |       |        |1        |
-|ggiraph                                                                  |0.7.0      |       |        |         |
-|[ggplotAssist](problems.md#ggplotassist)                                 |0.1.3      |       |        |1        |
-|ggplotgui                                                                |1.0.0      |       |        |         |
-|[ggquickeda](problems.md#ggquickeda)                                     |0.1.6      |       |        |1        |
-|ggraptR                                                                  |1.2        |       |        |         |
-|ggThemeAssist                                                            |0.1.5      |       |        |         |
-|ggvis                                                                    |0.4.5      |       |        |         |
-|gimmeTools                                                               |0.1        |       |        |         |
-|giphyr                                                                   |0.2.0      |       |        |         |
-|gitgadget                                                                |0.5.2      |       |        |         |
-|gitlabr                                                                  |1.1.6      |       |        |         |
-|gitlink                                                                  |0.1.3      |       |        |         |
-|glmaag                                                                   |0.0.6      |       |        |         |
-|GMCM                                                                     |1.4        |       |        |         |
-|[gmDatabase](problems.md#gmdatabase)                                     |0.5.0      |       |2       |1        |
-|[GmicR](problems.md#gmicr)                                               |1.2.0      |       |        |3        |
-|GMSE                                                                     |0.6.0.4    |       |        |         |
-|[GOFShiny](problems.md#gofshiny)                                         |0.1.0      |       |        |1        |
-|golem                                                                    |0.2.1      |       |        |         |
-|googleAnalyticsR                                                         |0.7.1      |       |        |         |
-|googleAuthR                                                              |1.3.0      |       |        |         |
-|googleCloudRunner                                                        |0.2.0      |       |        |         |
-|googleLanguageR                                                          |0.3.0      |       |        |         |
-|googleVis                                                                |0.6.5      |       |        |         |
-|googleway                                                                |2.7.1      |       |        |         |
-|[GPA](problems.md#gpa)                                                   |1.0.0      |       |        |1        |
-|GPoM.FDLyapu                                                             |1.0        |       |        |         |
-|[gQTLstats](problems.md#gqtlstats)                                       |1.20.0     |       |        |4        |
-|gradientPickerD3                                                         |0.1.0.0    |       |        |         |
-|[gravitas](problems.md#gravitas)                                         |0.1.2      |2      |        |         |
-|[gridsampler](problems.md#gridsampler)                                   |0.6        |       |        |1        |
-|[GSCA](problems.md#gsca)                                                 |2.17.0     |       |        |3        |
-|GSVA                                                                     |1.36.2     |       |        |         |
-|[gt](problems.md#gt)                                                     |0.2.1      |       |        |2        |
-|guiplot                                                                  |0.1.0      |       |        |         |
-|[gwdegree](problems.md#gwdegree)                                         |0.1.1      |       |        |1        |
-|GWSDAT                                                                   |3.0.3      |       |        |         |
-|[HaDeX](problems.md#hadex)                                               |1.2.1      |       |        |2        |
-|HARtools                                                                 |0.0.5      |       |        |         |
-|[hchinamap](problems.md#hchinamap)                                       |0.1.0      |       |        |1        |
-|HelpersMG                                                                |4.2        |       |        |         |
-|HH                                                                       |3.1-40     |       |        |         |
-|[highcharter](problems.md#highcharter)                                   |0.7.0      |       |        |1        |
-|highlightHTML                                                            |0.2.5      |       |        |         |
-|hpackedbubble                                                            |0.1.0      |       |        |         |
-|hR                                                                       |0.2.1      |       |        |         |
-|[HumanTranscriptomeCompendium](problems.md#humantranscriptomecompendium) |1.4.0      |2      |        |         |
-|[hwordcloud](problems.md#hwordcloud)                                     |0.1.0      |       |        |1        |
-|iAdapt                                                                   |0.1.0      |       |        |         |
-|iCellR                                                                   |1.5.1      |       |        |         |
-|iCOBRA                                                                   |1.16.0     |       |        |         |
-|ICSShiny                                                                 |0.5        |       |        |         |
-|[ideal](problems.md#ideal)                                               |1.12.1     |       |        |1        |
-|[idefix](problems.md#idefix)                                             |0.4.3      |       |        |1        |
-|[idem](problems.md#idem)                                                 |5.0        |       |        |2        |
-|ifaTools                                                                 |0.21       |       |        |         |
-|igraphinshiny                                                            |0.1        |       |        |         |
-|iheatmapr                                                                |0.4.12     |       |        |         |
-|imagefluency                                                             |0.2.3      |       |        |         |
-|Imetagene                                                                |1.18.0     |       |        |         |
-|[immunarch](problems.md#immunarch)                                       |0.6.5      |       |        |2        |
-|IMP                                                                      |1.1        |       |        |         |
-|ImportExport                                                             |1.1        |       |        |         |
-|[IMWatson](problems.md#imwatson)                                         |0.5.0      |       |        |1        |
-|[IncucyteDRC](problems.md#incucytedrc)                                   |0.5.4      |1      |        |         |
-|[INDperform](problems.md#indperform)                                     |0.2.2      |2      |        |1        |
-|inferr                                                                   |0.3.0      |       |        |         |
-|[inlabru](problems.md#inlabru)                                           |2.1.13     |       |        |2        |
-|[INSPEcT](problems.md#inspect)                                           |1.18.0     |       |        |2        |
-|[interactiveDisplay](problems.md#interactivedisplay)                     |1.26.0     |       |1       |2        |
-|interactiveDisplayBase                                                   |1.26.3     |       |        |         |
-|[interAdapt](problems.md#interadapt)                                     |0.1        |       |        |2        |
-|interimApp                                                               |0.0.1      |       |        |         |
-|[IOHanalyzer](problems.md#iohanalyzer)                                   |0.1.3      |       |        |2        |
-|ioncopy                                                                  |2.1.1      |       |        |         |
-|ipc                                                                      |0.1.3      |       |        |         |
-|ipumsr                                                                   |0.4.4      |       |        |         |
-|irtDemo                                                                  |0.1.4      |       |        |         |
-|IRTShiny                                                                 |1.2        |       |        |         |
-|[iSEE](problems.md#isee)                                                 |2.0.0      |2      |        |2        |
-|[iSEEu](problems.md#iseeu)                                               |1.0.1      |2      |        |         |
-|[iSTATS](problems.md#istats)                                             |1.4        |       |        |1        |
-|[ivygapSE](problems.md#ivygapse)                                         |1.10.0     |       |        |2        |
-|JMbayes                                                                  |0.8-85     |       |        |         |
-|JointNets                                                                |2.0.1      |       |        |         |
-|[jpmesh](problems.md#jpmesh)                                             |1.2.1      |       |        |1        |
-|[jpndistrict](problems.md#jpndistrict)                                   |0.3.7      |       |        |1        |
-|[jsmodule](problems.md#jsmodule)                                         |1.0.8      |       |        |1        |
-|KappaGUI                                                                 |2.0.2      |       |        |         |
-|KCSKNNShiny                                                              |0.1.0      |       |        |         |
-|KCSNBShiny                                                               |0.1.0      |       |        |         |
-|kgc                                                                      |1.0.0.2    |       |        |         |
-|kgschart                                                                 |1.3.5      |       |        |         |
-|[KNNShiny](problems.md#knnshiny)                                         |0.1.0      |       |        |1        |
-|[kokudosuuchi](problems.md#kokudosuuchi)                                 |0.4.2      |       |        |1        |
-|[koRpus](problems.md#korpus)                                             |0.11-5     |       |        |1        |
-|lavaan.shiny                                                             |1.2        |       |        |         |
-|LBSPR                                                                    |0.1.5      |       |        |         |
-|lcars                                                                    |0.3.1      |       |        |         |
-|lcsm                                                                     |0.1.1      |       |        |         |
-|LDAvis                                                                   |0.3.2      |       |        |         |
-|leaflet                                                                  |2.0.3      |       |        |         |
-|[leaflet.extras2](problems.md#leafletextras2)                            |1.0.0      |       |        |1        |
-|leaflet.minicharts                                                       |0.6.0      |       |        |         |
-|learnr                                                                   |0.10.1     |       |        |         |
-|[learnstats](problems.md#learnstats)                                     |0.1.1      |       |        |1        |
-|[levi](problems.md#levi)                                                 |1.6.0      |       |        |2        |
-|lifelogr                                                                 |0.1.0      |       |        |         |
-|lightsout                                                                |0.3        |       |        |         |
-|[likert](problems.md#likert)                                             |1.3.5      |       |        |1        |
-|lime                                                                     |0.5.1      |       |        |         |
-|linguisticsdown                                                          |1.2.0      |       |        |         |
-|linkspotter                                                              |1.2.0      |       |        |         |
-|linpk                                                                    |1.0        |       |        |         |
-|listviewer                                                               |3.0.0      |       |        |         |
-|[live](problems.md#live)                                                 |1.5.13     |       |        |1        |
-|[lmviz](problems.md#lmviz)                                               |0.1.2      |       |        |1        |
-|manipulateWidget                                                         |0.10.1     |       |        |         |
-|[mapdeck](problems.md#mapdeck)                                           |0.3.3      |       |        |1        |
-|[mapedit](problems.md#mapedit)                                           |0.6.0      |       |        |1        |
-|markdownInput                                                            |0.1.2      |       |        |         |
-|matman                                                                   |1.1.0      |       |        |         |
-|MAVIS                                                                    |1.1.3      |       |        |         |
-|MazamaSpatialUtils                                                       |0.6.4      |       |        |         |
-|MCPModPack                                                               |0.2        |-1     |        |         |
-|mcvis                                                                    |1.0.4      |       |        |         |
-|[MDSPCAShiny](problems.md#mdspcashiny)                                   |0.1.0      |       |        |1        |
-|meltt                                                                    |0.4.1      |       |        |         |
-|[memapp](problems.md#memapp)                                             |2.13       |       |        |1        |
-|[memery](problems.md#memery)                                             |0.5.2      |       |        |1        |
-|merTools                                                                 |0.5.0      |       |        |         |
-|[meta4diag](problems.md#meta4diag)                                       |2.0.8      |       |        |1        |
-|MetaAnalyser                                                             |0.2.1      |       |        |         |
-|metamer                                                                  |0.2.0      |       |        |         |
-|metathis                                                                 |1.0.2      |       |        |         |
-|[MetCirc](problems.md#metcirc)                                           |1.18.0     |       |        |2        |
-|[MethylAid](problems.md#methylaid)                                       |1.22.0     |2      |        |1        |
-|[methylGSA](problems.md#methylgsa)                                       |1.6.1      |       |        |1        |
-|metricsgraphics                                                          |0.9.0      |       |        |         |
-|[mgcViz](problems.md#mgcviz)                                             |0.1.6      |       |        |1        |
-|[microhaplot](problems.md#microhaplot)                                   |1.0.1      |       |        |1        |
-|microsamplingDesign                                                      |1.0.7      |       |        |         |
-|midas                                                                    |1.0.1      |       |        |         |
-|MIMSunit                                                                 |0.9.1      |       |        |         |
-|[miniMeta](problems.md#minimeta)                                         |0.2        |       |        |1        |
-|miniUI                                                                   |0.1.1.1    |       |        |         |
-|[miRcomp](problems.md#mircomp)                                           |1.18.0     |       |1       |         |
-|mirt                                                                     |1.32.1     |       |        |         |
-|mirtCAT                                                                  |1.9.3      |       |        |         |
-|[MLDAShiny](problems.md#mldashiny)                                       |0.1.0      |       |        |1        |
-|mldr                                                                     |0.4.3      |       |        |         |
-|[MLInterfaces](problems.md#mlinterfaces)                                 |1.68.0     |       |        |5        |
-|[mlr3shiny](problems.md#mlr3shiny)                                       |0.1.1      |       |        |1        |
-|[MLRShiny](problems.md#mlrshiny)                                         |0.1.0      |       |        |1        |
-|[MLRShiny2](problems.md#mlrshiny2)                                       |0.1.0      |       |        |1        |
-|mlxR                                                                     |4.1.3      |       |        |         |
-|[MMDiff2](problems.md#mmdiff2)                                           |1.16.0     |       |        |4        |
-|[MNLR](problems.md#mnlr)                                                 |0.1.0      |       |        |1        |
-|modest                                                                   |0.3-1      |       |        |         |
-|MODIStsp                                                                 |1.4.0      |       |        |         |
-|Mondrian                                                                 |1.1.0      |       |        |         |
-|mplot                                                                    |1.0.4      |       |        |         |
-|mrMLM.GUI                                                                |4.0        |       |        |         |
-|[MSEtool](problems.md#msetool)                                           |1.6.0      |       |        |1        |
-|[MSGFgui](problems.md#msgfgui)                                           |1.22.0     |1      |        |         |
-|[MSnbase](problems.md#msnbase)                                           |2.14.2     |       |        |3        |
-|MSstatsQCgui                                                             |1.8.0      |       |        |         |
-|[mstrio](problems.md#mstrio)                                             |11.2.1     |       |        |1        |
-|MtreeRing                                                                |1.4.2      |       |        |         |
-|[MuChPoint](problems.md#muchpoint)                                       |0.6.1      |       |        |1        |
-|multichull                                                               |1.0.0      |       |        |         |
-|mwaved                                                                   |1.1.7      |       |        |         |
-|mwshiny                                                                  |2.1.0      |       |        |         |
-|NACHO                                                                    |1.0.1      |       |        |         |
-|[nbc4va](problems.md#nbc4va)                                             |1.1        |1      |        |1        |
-|[NBShiny](problems.md#nbshiny)                                           |0.1.0      |       |        |1        |
-|[NBShiny2](problems.md#nbshiny2)                                         |0.1.0      |       |        |1        |
-|[NDP](problems.md#ndp)                                                   |0.1.0      |       |        |1        |
-|[neo4r](problems.md#neo4r)                                               |0.1.1      |       |        |1        |
-|netCoin                                                                  |1.1.25     |       |        |         |
-|netrankr                                                                 |0.2.1      |       |        |         |
-|nlgeocoder                                                               |0.1.3      |       |        |         |
-|NNTbiomarker                                                             |0.29.11    |       |        |         |
-|normalr                                                                  |1.0.0      |       |        |         |
-|nph                                                                      |2.0        |       |        |         |
-|[nprcgenekeepr](problems.md#nprcgenekeepr)                               |1.0.3      |       |        |1        |
-|npregfast                                                                |1.5.1      |       |        |         |
-|nse2r                                                                    |0.1.2      |       |        |         |
-|objectremover                                                            |0.7.0      |       |        |         |
-|[oceanis](problems.md#oceanis)                                           |1.7.3      |       |        |2        |
-|[omicplotR](problems.md#omicplotr)                                       |1.8.0      |       |        |2        |
-|[oneSENSE](problems.md#onesense)                                         |1.10.0     |       |1       |1        |
-|[ontoProc](problems.md#ontoproc)                                         |1.10.0     |1      |        |3        |
-|[oolong](problems.md#oolong)                                             |0.3.4      |       |        |1        |
-|OpenImageR                                                               |1.1.7      |       |        |         |
-|[openmetrics](problems.md#openmetrics)                                   |0.1.1      |       |        |1        |
-|[openPrimeRui](problems.md#openprimerui)                                 |1.10.0     |       |        |2        |
-|[oppr](problems.md#oppr)                                                 |1.0.2      |       |        |1        |
-|optimStrat                                                               |2.1        |       |        |         |
-|OWEA                                                                     |0.1.1      |       |        |         |
-|[pairsD3](problems.md#pairsd3)                                           |0.1.0      |       |        |1        |
-|[PanVizGenerator](problems.md#panvizgenerator)                           |1.16.0     |       |        |1        |
-|ParallelLogger                                                           |2.0.0      |       |        |         |
-|paramGUI                                                                 |2.1.4      |       |        |         |
-|parcoords                                                                |1.0.0      |       |        |         |
-|[PathoStat](problems.md#pathostat)                                       |1.14.0     |       |        |1        |
-|pcadapt                                                                  |4.3.3      |       |        |         |
-|[pcaExplorer](problems.md#pcaexplorer)                                   |2.14.2     |       |        |2        |
-|[pcFactorStan](problems.md#pcfactorstan)                                 |1.5.1      |       |        |2        |
-|PCRedux                                                                  |1.0-6      |       |        |         |
-|pdfsearch                                                                |0.3.0      |       |        |         |
-|PDShiny                                                                  |0.1.0      |       |        |         |
-|PELVIS                                                                   |2.0.1      |       |        |         |
-|[pepStat](problems.md#pepstat)                                           |1.22.0     |       |        |3        |
-|periscope                                                                |0.4.10-1   |       |        |         |
-|[phenocamr](problems.md#phenocamr)                                       |1.1.4      |       |        |1        |
-|phenofit                                                                 |0.2.7      |       |        |         |
-|phenology                                                                |7.3        |       |        |         |
-|phuse                                                                    |0.2.2      |       |        |         |
-|PhyloProfile                                                             |1.2.5      |       |        |         |
-|[piano](problems.md#piano)                                               |2.4.0      |       |        |2        |
-|pipe.design                                                              |0.5.1      |       |        |         |
-|pipefittr                                                                |0.1.2      |       |        |         |
-|[pitchRx](problems.md#pitchrx)                                           |1.8.2      |       |        |1        |
-|PivotalR                                                                 |0.1.18.3.1 |       |        |         |
-|[pivottabler](problems.md#pivottabler)                                   |1.5.0      |       |        |1        |
-|pixels                                                                   |0.1.0      |       |        |         |
-|PKconverter                                                              |1.5        |       |        |         |
-|pkgsearch                                                                |3.0.2      |       |        |         |
-|plainview                                                                |0.1.0      |       |        |         |
-|[plethem](problems.md#plethem)                                           |0.1.7      |1      |        |1        |
-|[plotGrouper](problems.md#plotgrouper)                                   |1.6.0      |       |        |1        |
-|[plotly](problems.md#plotly)                                             |4.9.2.1    |       |        |1        |
-|plotROC                                                                  |2.2.1      |       |        |         |
-|plotSEMM                                                                 |2.4        |       |        |         |
-|plsr                                                                     |0.0.1      |       |        |         |
-|[pmd](problems.md#pmd)                                                   |0.1.9      |       |        |1        |
-|[pogos](problems.md#pogos)                                               |1.8.0      |       |        |1        |
-|[polaroid](problems.md#polaroid)                                         |0.0.1      |       |        |1        |
-|[polmineR](problems.md#polminer)                                         |0.8.0      |       |        |1        |
-|PopED                                                                    |0.5.0      |       |        |         |
-|poppr                                                                    |2.8.6      |       |        |         |
-|populationPDXdesign                                                      |1.0.3      |       |        |         |
-|powdR                                                                    |1.2.2      |       |        |         |
-|powerlmm                                                                 |0.4.0      |       |        |         |
-|ppcSpatial                                                               |0.2.0      |       |        |         |
-|pqantimalarials                                                          |0.2        |       |        |         |
-|[precisely](problems.md#precisely)                                       |0.1.0      |       |        |1        |
-|[PrecisionTrialDrawer](problems.md#precisiontrialdrawer)                 |1.4.0      |1      |        |         |
-|[predictoR](problems.md#predictor)                                       |1.1.0      |       |        |1        |
-|[PREPShiny](problems.md#prepshiny)                                       |0.1.0      |       |        |1        |
-|[primirTSS](problems.md#primirtss)                                       |1.6.1      |       |1       |1        |
-|[prioritizr](problems.md#prioritizr)                                     |5.0.1      |       |        |2        |
-|ProbBayes                                                                |1.1        |       |        |         |
-|[PROBShiny](problems.md#probshiny)                                       |0.1.0      |       |        |1        |
-|[processanimateR](problems.md#processanimater)                           |1.0.3      |       |        |1        |
-|processmapR                                                              |0.3.4      |       |        |         |
-|processmonitR                                                            |0.1.0      |       |        |         |
-|processR                                                                 |0.2.3      |       |        |         |
-|profvis                                                                  |0.3.6      |       |        |         |
-|progressr                                                                |0.6.0      |       |        |         |
-|ProjectionBasedClustering                                                |1.1.1      |       |        |         |
-|pRolocGUI                                                                |1.22.0     |       |        |         |
-|Prostar                                                                  |1.20.0     |       |        |         |
-|[psichomics](problems.md#psichomics)                                     |1.14.1     |       |        |1        |
-|PupilPre                                                                 |0.6.2      |       |        |         |
-|pushbar                                                                  |0.1.0      |       |        |         |
-|[pwrEWAS](problems.md#pwrewas)                                           |1.2.0      |2      |        |         |
-|[QCA](problems.md#qca)                                                   |3.8.2      |       |        |2        |
-|qgam                                                                     |1.3.2      |       |        |         |
-|[qlcData](problems.md#qlcdata)                                           |0.2.1      |       |        |1        |
-|[qqplotr](problems.md#qqplotr)                                           |0.0.4      |       |        |1        |
-|qqvases                                                                  |1.0.0      |       |        |         |
-|QRAGadget                                                                |0.1.0      |       |        |         |
-|qrage                                                                    |1.0        |       |        |         |
-|QTL.gCIMapping.GUI                                                       |2.1        |       |        |         |
-|[questionr](problems.md#questionr)                                       |0.7.1      |       |        |2        |
-|R.SamBada                                                                |0.1.2      |       |        |         |
-|r2d3                                                                     |0.2.3      |       |        |         |
-|[R3CPET](problems.md#r3cpet)                                             |1.20.0     |1      |        |         |
-|r4ss                                                                     |1.36.1     |       |        |         |
-|rabi                                                                     |1.0.2      |       |        |         |
-|radarchart                                                               |0.3.1      |       |        |         |
-|radiant                                                                  |1.3.2      |       |        |         |
-|radiant.basics                                                           |1.3.4      |       |        |         |
-|radiant.data                                                             |1.3.9      |       |        |         |
-|radiant.design                                                           |1.3.5      |       |        |         |
-|radiant.model                                                            |1.3.10     |       |        |         |
-|radiant.multivariate                                                     |1.3.5      |       |        |         |
-|radix                                                                    |0.6        |       |        |         |
-|[RagGrid](problems.md#raggrid)                                           |0.2.0      |       |        |1        |
-|rainette                                                                 |0.1.1      |       |        |         |
-|[rAmCharts](problems.md#ramcharts)                                       |2.1.13     |       |        |1        |
-|rangeMapper                                                              |0.3-7      |       |        |         |
-|[rangeModelMetadata](problems.md#rangemodelmetadata)                     |0.1.3      |       |        |1        |
-|RanglaPunjab                                                             |2.3.4      |       |        |         |
-|[rapbase](problems.md#rapbase)                                           |1.10.0     |       |        |1        |
-|[Rariant](failures.md#rariant)                                           |1.24.0     |1      |        |         |
-|rbin                                                                     |0.2.0      |       |        |         |
-|rblt                                                                     |0.2.4.5    |       |        |         |
-|[rcellminer](problems.md#rcellminer)                                     |2.10.0     |       |1       |3        |
-|[rCGH](problems.md#rcgh)                                                 |1.18.0     |       |        |2        |
-|rclipboard                                                               |0.1.2      |       |        |         |
-|rco                                                                      |1.0.1      |       |        |         |
-|rcrossref                                                                |1.0.0      |       |        |         |
-|[Rcwl](problems.md#rcwl)                                                 |1.4.2      |1      |4       |5        |
-|[rddapp](problems.md#rddapp)                                             |1.2.1      |1      |        |2        |
-|RDML                                                                     |1.0        |       |        |         |
-|reactable                                                                |0.2.0      |       |        |         |
-|reactlog                                                                 |1.0.0      |       |        |         |
-|reactR                                                                   |0.4.2      |       |        |         |
-|[recmap](problems.md#recmap)                                             |1.0.7      |       |        |1        |
-|[ReDaMoR](problems.md#redamor)                                           |0.4.2      |       |        |1        |
-|[RefNet](problems.md#refnet)                                             |1.24.0     |       |1       |         |
-|refund.shiny                                                             |0.3.0      |       |        |         |
-|regexSelect                                                              |1.0.0      |       |        |         |
-|[regressoR](problems.md#regressor)                                       |1.1.8      |       |        |1        |
-|Repliscope                                                               |1.1.0      |       |        |         |
-|repo                                                                     |2.1.5      |       |        |         |
-|[ReportingTools](problems.md#reportingtools)                             |2.28.0     |       |        |1        |
-|reprex                                                                   |0.3.0      |       |        |         |
-|[reverseR](problems.md#reverser)                                         |0.1        |       |        |1        |
-|revtools                                                                 |0.4.1      |       |        |         |
-|[RforProteomics](problems.md#rforproteomics)                             |1.26.0     |       |1       |2 __+1__ |
-|[Rfssa](problems.md#rfssa)                                               |1.0.0      |       |        |1        |
-|RGA                                                                      |0.4.2      |       |        |         |
-|[rgl](problems.md#rgl)                                                   |0.100.54   |       |        |2        |
-|[rhandsontable](problems.md#rhandsontable)                               |0.3.7      |       |        |1        |
-|Rilostat                                                                 |1.1        |       |        |         |
-|rintrojs                                                                 |0.2.2      |       |        |         |
-|rivr                                                                     |1.2-2      |       |        |         |
-|[RLumShiny](problems.md#rlumshiny)                                       |0.2.2      |       |        |1        |
-|[rmarkdown](problems.md#rmarkdown)                                       |2.3        |       |        |1        |
-|[rmd](problems.md#rmd)                                                   |0.1.5      |       |        |1        |
-|[RnBeads](problems.md#rnbeads)                                           |2.6.0      |       |        |7        |
-|rnn                                                                      |0.9.8      |       |        |         |
-|roadoi                                                                   |0.6        |       |        |         |
-|robmed                                                                   |0.7.0      |       |        |         |
-|[RobStatTM](problems.md#robstattm)                                       |1.0.2      |       |        |1        |
-|[rosr](problems.md#rosr)                                                 |0.0.10     |       |        |1        |
-|rPackedBar                                                               |0.2.2      |       |        |         |
-|[rpostgisLT](problems.md#rpostgislt)                                     |0.6.0      |       |        |1        |
-|rpredictit                                                               |0.0.2      |       |        |         |
-|[Rqc](problems.md#rqc)                                                   |1.22.0     |       |        |2        |
-|[RQuantLib](problems.md#rquantlib)                                       |0.4.12     |2      |1       |         |
-|rrtable                                                                  |0.2.1      |       |        |         |
-|[rrvgo](problems.md#rrvgo)                                               |1.0.0      |       |        |3        |
-|RSCAT                                                                    |1.1.0      |       |        |         |
-|rsconnect                                                                |0.8.16     |       |        |         |
-|[rtimicropem](problems.md#rtimicropem)                                   |1.4.0      |       |        |1        |
-|rTRMui                                                                   |1.26.0     |       |        |         |
-|[RtutoR](problems.md#rtutor)                                             |1.2        |       |        |1        |
-|rusk                                                                     |0.1.1      |       |        |         |
-|ruv                                                                      |0.9.7.1    |       |        |         |
-|rwalkr                                                                   |0.5.2      |       |        |         |
-|[RxODE](problems.md#rxode)                                               |0.9.2-0    |       |        |1        |
-|sadists                                                                  |0.2.3      |       |        |         |
-|[safetyGraphics](problems.md#safetygraphics)                             |1.1.0      |       |        |1        |
-|samr                                                                     |3.0        |       |        |         |
-|[sangerseqR](problems.md#sangerseqr)                                     |1.24.0     |       |        |1        |
-|sankeywheel                                                              |0.1.0      |       |        |         |
-|[santaR](problems.md#santar)                                             |1.0        |       |        |1        |
-|[SC3](problems.md#sc3)                                                   |1.16.0     |       |        |3        |
-|scdhlm                                                                   |0.3.2      |       |        |         |
-|schex                                                                    |1.2.0      |       |        |         |
-|[scone](problems.md#scone)                                               |1.12.0     |       |        |1        |
-|sdcHierarchies                                                           |0.18.2     |       |        |         |
-|sdcMicro                                                                 |5.5.1      |       |        |         |
-|[SDEFSR](problems.md#sdefsr)                                             |0.7.21     |       |        |1        |
-|sdm                                                                      |1.0-89     |       |        |         |
-|[SEA](problems.md#sea)                                                   |1.0        |       |        |1        |
-|searchConsoleR                                                           |0.4.0      |       |        |         |
-|seasonalview                                                             |0.3        |       |        |         |
-|semantic.dashboard                                                       |0.1.5      |       |        |         |
-|[semdrw](problems.md#semdrw)                                             |0.1.0      |       |        |1        |
-|[SemNeT](problems.md#semnet)                                             |1.3.0      |       |        |2        |
-|sen2r                                                                    |1.3.6      |       |        |         |
-|[seqplots](problems.md#seqplots)                                         |1.26.0     |       |        |4        |
-|serieslcb                                                                |0.4.0      |       |        |         |
-|[sglr](problems.md#sglr)                                                 |0.7        |       |        |2        |
-|SHELF                                                                    |1.7.0      |       |        |         |
-|shiny.info                                                               |0.2.0      |       |        |         |
-|[shiny.router](problems.md#shinyrouter)                                  |0.1.1      |       |        |1        |
-|[shiny.semantic](problems.md#shinysemantic)                              |0.3.0      |       |        |1        |
-|[shinyAce](problems.md#shinyace)                                         |0.4.1      |       |        |1        |
-|[shinyaframe](problems.md#shinyaframe)                                   |1.0.1      |       |        |1        |
-|shinyalert                                                               |1.1        |       |        |         |
-|shinyanimate                                                             |0.3.0      |       |        |         |
-|shinybootstrap2                                                          |0.2.1      |       |        |         |
-|[shinybrms](problems.md#shinybrms)                                       |1.1.0      |       |        |1        |
-|[shinyBS](problems.md#shinybs)                                           |0.61       |       |        |1        |
-|shinybusy                                                                |0.2.0      |       |        |         |
-|shinycssloaders                                                          |0.3        |       |        |         |
-|shinycustomloader                                                        |0.9.0      |       |        |         |
-|shinydashboard                                                           |0.7.1      |       |        |         |
-|shinydashboardPlus                                                       |0.7.0      |       |        |         |
-|shinyDND                                                                 |0.1.0      |       |        |         |
-|[shinyEffects](problems.md#shinyeffects)                                 |0.1.0      |       |        |1        |
-|shinyEventLogger                                                         |0.1.1      |       |        |         |
-|shinyFeedback                                                            |0.2.0      |       |        |         |
-|shinyFiles                                                               |0.8.0      |       |        |         |
-|shinyglide                                                               |0.1.2      |       |        |         |
-|shinyHeatmaply                                                           |0.2.0      |       |        |         |
-|[shinyhelper](problems.md#shinyhelper)                                   |0.3.2      |       |        |1        |
-|ShinyImage                                                               |0.1.0      |       |        |         |
-|[ShinyItemAnalysis](problems.md#shinyitemanalysis)                       |1.3.3      |       |        |2        |
-|shinyjqui                                                                |0.3.3      |       |        |         |
-|[shinyjs](problems.md#shinyjs)                                           |1.1        |       |        |1        |
-|[shinyKGode](problems.md#shinykgode)                                     |1.0.5      |       |        |1        |
-|shinyKnobs                                                               |0.1.3      |       |        |         |
-|shinylogs                                                                |0.1.7      |       |        |         |
-|shinyLP                                                                  |1.1.2      |       |        |         |
-|shinymanager                                                             |1.0.200    |       |        |         |
-|shinymaterial                                                            |1.1.0      |       |        |         |
-|shinyMatrix                                                              |0.3.0      |       |        |         |
-|[shinyMethyl](problems.md#shinymethyl)                                   |1.24.0     |1      |        |         |
-|shinyML                                                                  |0.2.0      |       |        |         |
-|shinyMobile                                                              |0.7.0      |       |        |         |
-|shinyMolBio                                                              |0.2        |       |        |         |
-|shinyNotes                                                               |0.0.1      |       |        |         |
-|shinyobjects                                                             |0.1.0      |       |        |         |
-|[shinypanels](problems.md#shinypanels)                                   |0.5.0      |       |        |1        |
-|[shinyr](problems.md#shinyr)                                             |0.2.6      |       |        |1        |
-|[shinyrecap](problems.md#shinyrecap)                                     |0.1.0      |       |        |1        |
-|shinyrecipes                                                             |0.1.0      |       |        |         |
-|shinyreforms                                                             |0.0.1      |       |        |         |
-|shinyRGL                                                                 |0.1.0      |       |        |         |
-|shinySearchbar                                                           |1.0.0      |       |        |         |
-|shinySIR                                                                 |0.1.1      |       |        |         |
-|shinystan                                                                |2.5.0      |       |        |         |
-|[shinyTANDEM](problems.md#shinytandem)                                   |1.26.0     |1      |        |         |
-|shinytest                                                                |1.4.0      |       |        |         |
-|shinythemes                                                              |1.1.2      |       |        |         |
-|shinyTime                                                                |1.0.1      |       |        |         |
-|shinytoastr                                                              |2.1.1      |       |        |         |
-|shinyTree                                                                |0.2.7      |       |        |         |
-|shinyWidgets                                                             |0.5.3      |       |        |         |
-|shinyypr                                                                 |0.0.2      |       |        |         |
-|shotGroups                                                               |0.7.5.1    |       |        |         |
-|[sigmajs](problems.md#sigmajs)                                           |0.1.5      |       |        |1        |
-|sigmaNet                                                                 |1.1.0      |       |        |         |
-|signalHsmm                                                               |1.5        |       |        |         |
-|[SimDesign](problems.md#simdesign)                                       |2.0.1      |       |        |1        |
-|simglm                                                                   |0.8.0      |       |        |         |
-|simPATHy                                                                 |0.4        |       |        |         |
-|[simplevis](problems.md#simplevis)                                       |1.3.0      |       |        |1        |
-|simrel                                                                   |2.0.2      |       |        |         |
-|sinew                                                                    |0.3.8      |       |        |         |
-|SingleCaseES                                                             |0.4.3      |       |        |         |
-|[singleCellTK](problems.md#singlecelltk)                                 |1.8.0      |       |        |3        |
-|sistec                                                                   |0.1.0      |       |        |         |
-|[skeleSim](failures.md#skelesim)                                         |0.9.8      |1      |        |         |
-|[skpr](problems.md#skpr)                                                 |0.64.2     |       |        |2        |
-|SMITIDvisu                                                               |0.0.6      |       |        |         |
-|snahelper                                                                |1.1.0      |       |        |         |
-|snotelr                                                                  |1.0.4      |       |        |         |
-|[soc.ca](problems.md#socca)                                              |0.7.3      |       |        |1        |
-|Sofi                                                                     |0.16.4.8   |       |        |         |
-|[soilcarbon](problems.md#soilcarbon)                                     |1.2.0      |       |        |2        |
-|[sojourner](problems.md#sojourner)                                       |1.2.1      |1      |        |         |
-|solvebio                                                                 |2.7.2      |       |        |         |
-|SOMbrero                                                                 |1.3        |       |        |         |
-|sortable                                                                 |0.4.2      |       |        |         |
-|[soundgen](problems.md#soundgen)                                         |1.7.0      |       |        |1        |
-|[SpaDES.addins](problems.md#spadesaddins)                                |0.1.2      |       |        |1        |
-|Spaniel                                                                  |1.2.0      |       |        |         |
-|spANOVA                                                                  |0.99.2     |       |        |         |
-|[spant](problems.md#spant)                                               |1.6.0      |       |        |1        |
-|sparkline                                                                |2.0        |       |        |         |
-|[sparklyr](problems.md#sparklyr)                                         |1.2.0      |       |        |1        |
-|[sparkTable](problems.md#sparktable)                                     |1.3.0      |       |        |1        |
-|SpatialCPie                                                              |1.4.0      |       |        |         |
-|[SpatialEpiApp](problems.md#spatialepiapp)                               |0.3        |       |        |2        |
-|[spatialLIBD](problems.md#spatiallibd)                                   |1.0.0      |1      |        |1        |
-|[spectrolab](problems.md#spectrolab)                                     |0.0.9      |       |        |1        |
-|spinifex                                                                 |0.2.0      |       |        |         |
-|SpNetPrep                                                                |1.1        |       |        |         |
-|spotGUI                                                                  |0.2.1      |       |        |         |
-|SqlRender                                                                |1.6.6      |       |        |         |
-|squid                                                                    |0.1.2      |       |        |         |
-|[SSDM](problems.md#ssdm)                                                 |0.2.8      |       |        |1        |
-|[ssrch](problems.md#ssrch)                                               |1.4.0      |       |        |2        |
-|[sstModel](problems.md#sstmodel)                                         |1.0.0      |       |        |1        |
-|[STAT](problems.md#stat)                                                 |0.1.0      |       |        |1        |
-|statnetWeb                                                               |0.5.5      |       |        |         |
-|statsr                                                                   |0.2.0      |       |        |         |
-|[steemr](problems.md#steemr)                                             |0.1.3      |       |        |1        |
-|StereoMorph                                                              |1.6.3      |       |        |         |
-|stmgui                                                                   |0.1.6      |       |        |         |
-|[stminsights](problems.md#stminsights)                                   |0.3.0      |       |        |1        |
-|[STMotif](problems.md#stmotif)                                           |2.0.0      |       |        |1        |
-|[strand](problems.md#strand)                                             |0.1.3      |       |        |1        |
-|StratigrapheR                                                            |1.1.0      |       |        |         |
-|[subscreen](problems.md#subscreen)                                       |2.0.1      |       |        |1        |
-|SubVis                                                                   |2.0.2      |       |        |         |
-|swirlify                                                                 |0.5.3      |       |        |         |
-|[tableHTML](problems.md#tablehtml)                                       |2.0.0      |       |        |2        |
-|[tablerDash](problems.md#tablerdash)                                     |0.1.0      |       |        |1        |
-|tabulizer                                                                |0.2.2      |       |        |         |
-|taipan                                                                   |0.1.2      |       |        |         |
-|target                                                                   |1.2.0      |       |        |         |
-|[TAShiny](problems.md#tashiny)                                           |0.1.0      |       |        |1        |
-|[TBSignatureProfiler](problems.md#tbsignatureprofiler)                   |1.0.0      |       |        |1        |
-|[TCGAbiolinksGUI](problems.md#tcgabiolinksgui)                           |1.14.0     |       |        |3        |
-|[TeachBayes](problems.md#teachbayes)                                     |1.0        |       |1       |         |
-|teachingApps                                                             |1.0.8      |       |        |         |
-|[tenXplore](problems.md#tenxplore)                                       |1.10.0     |       |        |1        |
-|[TestDesign](problems.md#testdesign)                                     |1.0.2      |       |        |1        |
-|[testextra](problems.md#testextra)                                       |0.1.0.1    |       |        |1        |
-|[texPreview](problems.md#texpreview)                                     |1.4.4      |       |        |1        |
-|[TFutils](problems.md#tfutils)                                           |1.8.0      |1      |1       |4        |
-|themetagenomics                                                          |1.0.2      |       |        |         |
-|threeBrain                                                               |0.1.7      |       |        |         |
-|[tidycells](problems.md#tidycells)                                       |0.2.2      |2      |        |         |
-|tidycwl                                                                  |1.0.4      |       |        |         |
-|tidyvpc                                                                  |1.0.0      |       |        |         |
-|tigerstats                                                               |0.3.2      |       |        |         |
-|[timeline](problems.md#timeline)                                         |0.9        |       |        |2        |
-|[TimerQuant](problems.md#timerquant)                                     |1.18.0     |       |        |1        |
-|[timeseriesdb](problems.md#timeseriesdb)                                 |0.4.1      |       |        |1        |
-|[timevis](problems.md#timevis)                                           |0.5        |       |        |1        |
-|tippy                                                                    |0.0.1      |       |        |         |
-|tmap                                                                     |3.0        |       |        |         |
-|[tmaptools](problems.md#tmaptools)                                       |3.0        |       |        |1        |
-|TnT                                                                      |1.10.0     |       |        |         |
-|toxEval                                                                  |1.1.0      |       |        |         |
-|[TR8](problems.md#tr8)                                                   |0.9.21     |       |        |1        |
-|trackdem                                                                 |0.5.2      |       |        |         |
-|[trackeRapp](problems.md#trackerapp)                                     |1.1        |       |        |1        |
-|trackr                                                                   |0.10.6     |       |        |         |
-|trade                                                                    |0.5.4      |       |        |         |
-|treemap                                                                  |2.4-2      |       |        |         |
-|TreeSearch                                                               |0.4.1      |       |        |         |
-|[treespace](problems.md#treespace)                                       |1.1.3.2    |       |        |1        |
-|TreeTools                                                                |1.0.0      |       |        |         |
-|Trendy                                                                   |1.10.0     |       |        |         |
-|tricolore                                                                |1.2.2      |       |        |         |
-|[TSCAN](problems.md#tscan)                                               |1.26.0     |       |        |1        |
-|tsviz                                                                    |0.1.0      |       |        |         |
-|[ttestshiny](problems.md#ttestshiny)                                     |0.1.0      |       |        |1        |
-|[TVTB](problems.md#tvtb)                                                 |1.14.0     |       |        |1        |
-|[twoddpcr](problems.md#twoddpcr)                                         |1.12.0     |       |        |1        |
-|[TxRegInfra](problems.md#txreginfra)                                     |1.8.0      |       |        |5        |
-|[ubiquity](problems.md#ubiquity)                                         |1.0.1      |       |        |1        |
-|[UCSCXenaShiny](problems.md#ucscxenashiny)                               |0.5.0      |       |        |2        |
-|UCSCXenaTools                                                            |1.3.1      |       |        |         |
-|[Ularcirc](problems.md#ularcirc)                                         |1.6.0      |1      |        |         |
-|Umatrix                                                                  |3.3        |       |        |         |
-|[ursa](problems.md#ursa)                                                 |3.8.20     |       |        |1        |
-|[VariantFiltering](problems.md#variantfiltering)                         |1.24.0     |1      |        |3        |
-|[VarSelLCM](problems.md#varsellcm)                                       |2.1.3      |       |        |1        |
-|[vdiffr](problems.md#vdiffr)                                             |0.3.2      |       |        |1        |
-|vegawidget                                                               |0.3.1      |       |        |         |
-|vici                                                                     |0.5.2      |       |        |         |
-|VineCopula                                                               |2.3.0      |       |        |         |
-|[viromeBrowser](problems.md#viromebrowser)                               |1.0.0      |       |        |1        |
-|[visit](problems.md#visit)                                               |2.1        |       |        |2        |
-|[visNetwork](problems.md#visnetwork)                                     |2.0.9      |       |        |1        |
-|vistributions                                                            |0.1.1      |       |        |         |
-|visvow                                                                   |0.9.0      |       |        |         |
-|voronoiTreemap                                                           |0.2.0      |       |        |         |
-|VOSONDash                                                                |0.5.4      |       |        |         |
-|vov                                                                      |0.1.0      |       |        |         |
-|vtree                                                                    |4.0.0      |       |        |         |
-|[VTShiny](problems.md#vtshiny)                                           |0.1.0      |       |        |1        |
-|VWPre                                                                    |1.2.3      |       |        |         |
-|[waiter](problems.md#waiter)                                             |0.1.0      |       |        |1        |
-|[wallace](problems.md#wallace)                                           |1.0.6.2    |       |        |1        |
-|[webr](problems.md#webr)                                                 |0.1.5      |       |        |1        |
-|webshot                                                                  |0.5.2      |       |        |         |
-|weco                                                                     |1.2        |       |        |         |
-|weightr                                                                  |2.0.2      |       |        |         |
-|wilson                                                                   |2.4.0      |       |        |         |
-|wiqid                                                                    |0.3.0      |       |        |         |
-|[wiseR](problems.md#wiser)                                               |1.0.1      |       |        |2        |
-|workflowr                                                                |1.6.2      |       |        |         |
-|wppExplorer                                                              |2.3-4      |       |        |         |
-|[wTO](problems.md#wto)                                                   |1.6.3      |       |        |1        |
-|xplorerr                                                                 |0.1.1      |       |        |         |
-|[xROI](problems.md#xroi)                                                 |0.9.13     |       |1       |         |
-|[ymlthis](problems.md#ymlthis)                                           |0.1.2      |       |        |1        |
-|yonder                                                                   |0.2.0      |       |        |         |
-|[yuimaGUI](problems.md#yuimagui)                                         |1.3.0      |       |        |1        |
-|zooimage                                                                 |5.5.2      |       |        |         |
-|zscorer                                                                  |0.3.1      |       |        |         |
+|package    |version |error |warning |note |
+|:----------|:-------|:-----|:-------|:----|
+|ctsem      |3.6.0   |1     |        |     |
+|diveR      |?       |      |        |     |
+|loon.shiny |?       |      |        |     |
+|NA         |?       |      |        |     |
+|SSVS       |?       |      |        |     |