Merged changes from rstudio/main

.github/CODE_OF_CONDUCT.md

@@ -6,8 +6,8 @@ We as members, contributors, and leaders pledge to make participation in our
 community a harassment-free experience for everyone, regardless of age, body
 size, visible or invisible disability, ethnicity, sex characteristics, gender
 identity and expression, level of experience, education, socio-economic status,
-nationality, personal appearance, race, religion, or sexual identity and
-orientation.
+nationality, personal appearance, race, caste, color, religion, or sexual
+identity and orientation.
 
 We pledge to act and interact in ways that contribute to an open, welcoming,
 diverse, inclusive, and healthy community.
@@ -21,25 +21,25 @@ community include:
 * Being respectful of differing opinions, viewpoints, and experiences
 * Giving and gracefully accepting constructive feedback
 * Accepting responsibility and apologizing to those affected by our mistakes,
-and learning from the experience
+  and learning from the experience
 * Focusing on what is best not just for us as individuals, but for the overall
-community
+  community
 
 Examples of unacceptable behavior include:
 
-* The use of sexualized language or imagery, and sexual attention or
-advances of any kind
+* The use of sexualized language or imagery, and sexual attention or advances of
+  any kind
 * Trolling, insulting or derogatory comments, and personal or political attacks
 * Public or private harassment
-* Publishing others' private information, such as a physical or email
-address, without their explicit permission
+* Publishing others' private information, such as a physical or email address,
+  without their explicit permission
 * Other conduct which could reasonably be considered inappropriate in a
-professional setting
+  professional setting
 
 ## Enforcement Responsibilities
 
-Community leaders are responsible for clarifying and enforcing our standards
-of acceptable behavior and will take appropriate and fair corrective action in
+Community leaders are responsible for clarifying and enforcing our standards of
+acceptable behavior and will take appropriate and fair corrective action in
 response to any behavior that they deem inappropriate, threatening, offensive,
 or harmful.
 
@@ -50,16 +50,17 @@ decisions when appropriate.
 
 ## Scope
 
-This Code of Conduct applies within all community spaces, and also applies
-when an individual is officially representing the community in public spaces.
-Examples of representing our community include using an official e-mail
-address, posting via an official social media account, or acting as an appointed
+This Code of Conduct applies within all community spaces, and also applies when
+an individual is officially representing the community in public spaces.
+Examples of representing our community include using an official e-mail address,
+posting via an official social media account, or acting as an appointed
 representative at an online or offline event.
 
 ## Enforcement
 
 Instances of abusive, harassing, or otherwise unacceptable behavior may be
-reported to the community leaders responsible for enforcement at codeofconduct@rstudio.com. All complaints will be reviewed and investigated promptly and fairly.
+reported to the community leaders responsible for enforcement at codeofconduct@posit.co. 
+All complaints will be reviewed and investigated promptly and fairly.
 
 All community leaders are obligated to respect the privacy and security of the
 reporter of any incident.
@@ -113,13 +114,13 @@ community.
 ## Attribution
 
 This Code of Conduct is adapted from the [Contributor Covenant][homepage],
-version 2.0,
-available at <https://www.contributor-covenant.org/version/2/0/code_of_conduct.html>.
+version 2.1, available at
+<https://www.contributor-covenant.org/version/2/1/code_of_conduct.html>.
 
-Community Impact Guidelines were inspired by [Mozilla's code of conduct
-enforcement ladder](https://github.com/mozilla/diversity).
-
-[homepage]: https://www.contributor-covenant.org
+Community Impact Guidelines were inspired by
+[Mozilla's code of conduct enforcement ladder][https://github.com/mozilla/inclusion].
 
 For answers to common questions about this code of conduct, see the FAQ at
 <https://www.contributor-covenant.org/faq>. Translations are available at <https://www.contributor-covenant.org/translations>.
+
+[homepage]: https://www.contributor-covenant.org

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

@@ -1,59 +1,59 @@
-# For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag.
-# https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
+#
+# NOTE: This workflow is overkill for most R packages and
+# check-standard.yaml is likely a better choice.
+# usethis::use_github_action("check-standard") will install it.
 on:
   push:
-    branches:
-      - main
-      - master
+    branches: [ main, master ]
     paths-ignore:
       - 'pkgdown/**'
       - '.github/workflows/pkgdown.yaml'
   pull_request:
-    branches:
-      - main
-      - master
+    branches: [ main, master ]
     paths-ignore:
       - 'pkgdown/**'
       - '.github/workflows/pkgdown.yaml'
+  workflow_dispatch:
 
 name: R-CMD-check
 
 jobs:
   R-CMD-check:
     runs-on: ${{ matrix.config.os }}
-    name: ${{ matrix.config.os }} (${{ matrix.config.r }}) [Pandoc ${{ matrix.config.pandoc }}]
+
+    name: ${{ matrix.config.os }} (${{ matrix.config.r }}) [Pandoc ${{matrix.config.pandoc}}]
 
     strategy:
       fail-fast: false
       matrix:
         config:
           # testing R release with last shipped pandoc version in RStudio IDE and new pandoc
-          - {os: windows-latest, pandoc: '2.19',     r: 'release'}
-          - {os: macOS-latest,   pandoc: '2.19',     r: 'release'}
+          - {os: windows-latest, pandoc: '3.1.1',    r: 'release'}
+          - {os: macOS-latest,   pandoc: '3.1.1',    r: 'release'}
           - {os: ubuntu-latest,  pandoc: 'devel',    r: 'release'}
-          - {os: ubuntu-latest,  pandoc: '2.19',     r: 'release'}
           # testing older pandoc versions
+          - {os: ubuntu-latest,  pandoc: '2.19.2',   r: 'release'}
           - {os: ubuntu-latest,  pandoc: '2.18',     r: 'release'}
           - {os: ubuntu-latest,  pandoc: '2.17.1.1', r: 'release'}
+          - {os: ubuntu-latest,  pandoc: '2.16.2',   r: 'release'}
           - {os: ubuntu-latest,  pandoc: '2.14.2',   r: 'release'}
           - {os: ubuntu-latest,  pandoc: '2.11.4',   r: 'release'}
-          # Does not shipped with pandoc-citeproc so can't test without installing it
-          # - {os: ubuntu-latest,  pandoc: '2.5',      r: 'release'}
-          # - {os: ubuntu-latest,  pandoc: '2.0.0.1',  r: 'release'}
+          - {os: ubuntu-latest,  pandoc: '2.7.3',    r: 'release'}
+          - {os: ubuntu-latest,  pandoc: '2.5',      r: 'release'}
           # testing other R versions
-          - {os: ubuntu-latest,  pandoc: '2.14.2',   r: 'devel', http-user-agent: 'release'}
-          - {os: ubuntu-latest,  pandoc: '2.14.2',   r: 'oldrel-1'}
-          - {os: ubuntu-latest,  pandoc: '2.14.2',   r: 'oldrel-2'}
-          - {os: ubuntu-latest,  pandoc: '2.14.2',   r: 'oldrel-3'}
-          - {os: ubuntu-latest,  pandoc: '2.14.2',   r: 'oldrel-4'}
+          - {os: ubuntu-latest,  pandoc: '2.11.4',   r: 'devel', http-user-agent: 'release'}
+          - {os: ubuntu-latest,  pandoc: '2.11.4',   r: 'oldrel-1'}
+          - {os: ubuntu-latest,  pandoc: '2.11.4',   r: 'oldrel-2'}
+          - {os: ubuntu-latest,  pandoc: '2.11.4',   r: 'oldrel-3'}
 
     env:
-      R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
       R_KEEP_PKG_SOURCE: yes
 
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
 
       - uses: r-lib/actions/setup-r@v2
         with:
@@ -66,30 +66,28 @@ jobs:
         run: echo "TMPDIR=${{ runner.temp }}" >> $GITHUB_ENV
         shell: bash
 
-      - uses: r-lib/actions/setup-pandoc@v2
-        if: matrix.config.pandoc != 'devel'
-        with:
-          pandoc-version: ${{ matrix.config.pandoc }}
-
-      - uses: cderv/actions/setup-pandoc-nightly@nightly-pandoc
-        if: matrix.config.pandoc == 'devel'
-
       - uses: r-lib/actions/setup-tinytex@v2
         env:
           # install full prebuilt version
           TINYTEX_INSTALLER: TinyTeX
 
-      - name: Add some R options for later steps
-        run: |
-          cat("\noptions(tinytex.verbose = TRUE)\n", file = "~/.Rprofile", append = TRUE)
-          cat(readLines("~/.Rprofile"), sep = "\n")
-        shell: Rscript {0}
-
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
           extra-packages: any::rcmdcheck
           needs: check
 
+      - name: Remove default installed Pandoc
+        if: runner.os == 'Linux'
+        run: sudo dpkg -r pandoc
+
+      - uses: r-lib/actions/setup-pandoc@v2
+        if: matrix.config.pandoc != 'devel'
+        with:
+          pandoc-version: ${{ matrix.config.pandoc }}
+
+      - uses: cderv/actions/setup-pandoc-nightly@nightly-pandoc
+        if: matrix.config.pandoc == 'devel'
+
       - name: Pandoc and Tinytex info
         run: |
           rmarkdown::find_pandoc()
@@ -98,9 +96,11 @@ jobs:
         shell: Rscript {0}
 
       - uses: r-lib/actions/check-r-package@v2
+        with:
+          upload-snapshots: true
 
       - name: Test coverage
-        if: success() && runner.os == 'Linux' && matrix.config.r == 'release' && matrix.config.pandoc == '2.7.3'
+        if: success() && runner.os == 'Linux' && matrix.config.r == 'release' && matrix.config.pandoc == '2.19.2'
         run: |
           pak::pkg_install('covr')
           covr::codecov()

.github/workflows/check-pandoc-daily.yaml

@@ -64,3 +64,5 @@ jobs:
         shell: Rscript {0}
 
       - uses: r-lib/actions/check-r-package@v2
+        with:
+          upload-snapshots: true

.github/workflows/lock.yaml

@@ -0,0 +1,48 @@
+# From https://github.com/marketplace/actions/lock-threads
+name: 'Lock threads'
+
+on:
+  schedule:
+    - cron: '10 5 * * 3'
+
+jobs:
+  lock:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: dessant/lock-threads@v4
+        with:
+          github-token: ${{ github.token }}
+          issue-inactive-days: '180'
+          # exclude-issue-created-before: ''
+          # exclude-issue-created-after: ''
+          # exclude-issue-created-between: ''
+          # exclude-issue-closed-before: ''
+          # exclude-issue-closed-after: ''
+          # exclude-issue-closed-between: ''
+          # include-any-issue-labels: ''
+          # include-all-issue-labels: ''
+          # exclude-any-issue-labels: ''
+          # add-issue-labels: ''
+          # remove-issue-labels: ''
+          issue-comment: >
+            This old thread has been automatically locked. If you think you have
+            found something related to this, please open a new issue by following
+            the issue guide (<https://yihui.org/issue/>), and link to this
+            old issue if necessary.
+          issue-lock-reason: 'resolved'
+          pr-inactive-days: '180'
+          # exclude-pr-created-before: ''
+          # exclude-pr-created-after: ''
+          # exclude-pr-created-between: ''
+          # exclude-pr-closed-before: ''
+          # exclude-pr-closed-after: ''
+          # exclude-pr-closed-between: ''
+          # include-any-pr-labels: ''
+          # include-all-pr-labels: ''
+          # exclude-any-pr-labels: ''
+          # add-pr-labels: ''
+          # remove-pr-labels: ''
+          # pr-comment: ''
+          # pr-lock-reason: 'resolved'
+          # process-only: ''
+          # log-output: false

.github/workflows/pkgdown.yaml

@@ -1,39 +1,40 @@
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
 on:
   push:
-    branches:
-     - main
-     - master
+    branches: [main, master]
   pull_request:
-    branches:
-     - main
-     - master
+    branches: [main, master]
+  release:
+    types: [published]
+  workflow_dispatch:
 
 name: pkgdown
 
 jobs:
   pkgdown:
-    if: ${{ github.event_name == 'push' || startsWith(github.head_ref, 'pkgdown/') }}
     runs-on: ubuntu-latest
+    # Only restrict concurrency for non-PR jobs
+    concurrency:
+      group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
     env:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
+
+      - uses: r-lib/actions/setup-pandoc@v2
 
       - uses: r-lib/actions/setup-r@v2
         with:
           use-public-rspm: true
 
-      - uses: r-lib/actions/setup-pandoc@v2
-
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: |
-            any::pkgdown
-            local::.
+          extra-packages: any::pkgdown, local::.
           needs: website
 
       - name: Build pkgdown site
-        run: pkgdown::build_site(new_process = FALSE)
+        run: pkgdown::build_site(new_process = FALSE, install = FALSE)
         shell: Rscript {0}
 
       - name: Deploy to Netlify

.github/workflows/update-citation-cff.yaml

@@ -17,7 +17,7 @@ jobs:
     env:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
 
       - uses: r-lib/actions/setup-r@v2
         with: