From 20adb352e67cf3df88794bb3f878dc141634425b Mon Sep 17 00:00:00 2001
From: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Date: Wed, 5 Feb 2025 11:55:38 +0100
Subject: [PATCH] Updated github actions yml

---
 .github/workflows/check.yaml         | 12 ++++++++----
 .github/workflows/pkgdown.yaml       | 10 +++-------
 .github/workflows/test-coverage.yaml | 29 ++++++++++++++++++++++------
 3 files changed, 34 insertions(+), 17 deletions(-)

diff --git a/.github/workflows/check.yaml b/.github/workflows/check.yaml
index 0f822eb..d57cff1 100644
--- a/.github/workflows/check.yaml
+++ b/.github/workflows/check.yaml
@@ -1,8 +1,10 @@
 on:
   push:
-    branches: [main, master]
+    branches:
+      - main
   pull_request:
-    branches: [main, master]
+    branches:
+      - main
   schedule:
     - cron: '0 4 * * *'
 
@@ -29,7 +31,7 @@ jobs:
       R_KEEP_PKG_SOURCE: yes
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - uses: r-lib/actions/setup-pandoc@v2
 
@@ -41,8 +43,10 @@ jobs:
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: rcmdcheck
+          extra-packages: any::rcmdcheck
+          needs: check
 
       - uses: r-lib/actions/check-r-package@v2
         with:
           upload-snapshots: true
+          build_args: 'c("--no-manual","--compact-vignettes=gs+qpdf")'
diff --git a/.github/workflows/pkgdown.yaml b/.github/workflows/pkgdown.yaml
index 087f0b0..76f4188 100644
--- a/.github/workflows/pkgdown.yaml
+++ b/.github/workflows/pkgdown.yaml
@@ -2,11 +2,7 @@
 # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
 on:
   push:
-    branches: [main, master]
-  pull_request:
-    branches: [main, master]
-  release:
-    types: [published]
+    branches: main
   workflow_dispatch:
 
 name: pkgdown
@@ -20,7 +16,7 @@ jobs:
     env:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - uses: r-lib/actions/setup-pandoc@v2
 
@@ -39,7 +35,7 @@ jobs:
 
       - name: Deploy to GitHub pages 🚀
         if: github.event_name != 'pull_request'
-        uses: JamesIves/github-pages-deploy-action@v4.4.1
+        uses: JamesIves/github-pages-deploy-action@v4.5.0
         with:
           clean: false
           branch: gh-pages
diff --git a/.github/workflows/test-coverage.yaml b/.github/workflows/test-coverage.yaml
index 4198558..5f76c62 100644
--- a/.github/workflows/test-coverage.yaml
+++ b/.github/workflows/test-coverage.yaml
@@ -1,8 +1,8 @@
+# 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]
-  pull_request:
-    branches: [main, master]
+    branches: main
 
 name: test-coverage
 
@@ -13,7 +13,7 @@ jobs:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - uses: r-lib/actions/setup-r@v2
         with:
@@ -21,9 +21,26 @@ jobs:
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: any::covr
+          extra-packages: any::covr, any::xml2
           needs: coverage
 
       - name: Test coverage
-        run: covr::codecov(quiet = FALSE)
+        run: |
+          cov <- covr::package_coverage(
+            type = "none",
+            code = "tinytest::run_test_dir(at_home = TRUE)",
+            quiet = FALSE,
+            clean = FALSE,
+            install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "package")
+          )
+          covr::to_cobertura(cov)
         shell: Rscript {0}
+
+      - uses: codecov/codecov-action@v4
+        with:
+          fail_ci_if_error: ${{ github.event_name != 'pull_request' && true || false }}
+          file: ./cobertura.xml
+          plugin: noop
+          disable_search: true
+          token: ${{ secrets.CODECOV_TOKEN }}
+