From 63499c814723576c050816d56cc1264fffa00c0d Mon Sep 17 00:00:00 2001
From: Mason Garrison <garrissm@wfu.edu>
Date: Thu, 10 Oct 2024 11:05:13 -0400
Subject: [PATCH] Update pkgdown.yaml

---
 .github/workflows/pkgdown.yaml    | 69 ++++++++++++++-----------------
 vignettes/articles/compile_joss.R |  6 +--
 2 files changed, 35 insertions(+), 40 deletions(-)

diff --git a/.github/workflows/pkgdown.yaml b/.github/workflows/pkgdown.yaml
index 72fa7343..4bbce750 100644
--- a/.github/workflows/pkgdown.yaml
+++ b/.github/workflows/pkgdown.yaml
@@ -1,55 +1,50 @@
+# 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
-    tags:
-      -'*'
+    branches: [main, master]
+  pull_request:
+    branches: [main, master]
+  release:
+    types: [published]
+  workflow_dispatch:
 
-name: pkgdown
+name: pkgdown.yaml
+
+permissions: read-all
 
 jobs:
   pkgdown:
-    runs-on: macOS-latest
+    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 }}
+    permissions:
+      contents: write
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/setup-pandoc@v2
 
       - uses: r-lib/actions/setup-r@v2
         with:
-          r-version: ${{ matrix.config.r }}
-          rtools-version: ${{ matrix.config.rtools }}
-          http-user-agent: ${{ matrix.config.http-user-agent }}
           use-public-rspm: true
 
-      - uses: r-lib/actions/setup-pandoc@v1
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::pkgdown, local::.
+          needs: website
 
-      - name: Query dependencies
-        run: |
-          install.packages('remotes')
-          saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
-          writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
+      - name: Build site
+        run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
         shell: Rscript {0}
 
-      - name: Restore R package cache
-        uses: actions/cache@v2
+      - name: Deploy to GitHub pages 🚀
+        if: github.event_name != 'pull_request'
+        uses: JamesIves/github-pages-deploy-action@v4.5.0
         with:
-          path: ${{ env.R_LIBS_USER }}
-          key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
-          restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-
-
-      - name: Install dependencies
-        run: |
-          remotes::install_deps(dependencies = TRUE)
-          install.packages("pkgdown", type = "binary")
-        shell: Rscript {0}
-
-      - name: Install package
-        run: R CMD INSTALL .
-
-      - name: Deploy package
-        run: |
-          git config --local user.email "actions@github.com"
-          git config --local user.name "GitHub Actions"
-          Rscript -e 'pkgdown::deploy_to_branch(new_process = FALSE)'
+          clean: false
+          branch: gh-pages
+          folder: docs
diff --git a/vignettes/articles/compile_joss.R b/vignettes/articles/compile_joss.R
index f15dae65..e784814a 100644
--- a/vignettes/articles/compile_joss.R
+++ b/vignettes/articles/compile_joss.R
@@ -1,9 +1,9 @@
 compile_joss <- function(...) {
   message("Rendering rmarkdown document...")
 
-  rmarkdown::render('E:/Dropbox/Lab/Research/Projects/2023/NlsyLinks/vignettes/articles/paper.Rmd',
-                    encoding = 'UTF-8',
-                    knit_root_dir = '~/R')
+  #rmarkdown::render('E:/Dropbox/Lab/Research/Projects/2023/NlsyLinks/vignettes/articles/paper.Rmd',
+#                    encoding = 'UTF-8',
+#                    knit_root_dir = '~/R')
 
   message("Done rendering!")
 }