Merge branch 'main' into parent

.Rbuildignore

@@ -51,8 +51,12 @@
 ^R/revdep\.R$
 ^compile_commands\.json$
 ^\.cache$
+^rchk$
 ^man/dot-igraph.progress\.Rd$
 ^man/dot-igraph.status\.Rd$
 ^man/dot-extract_constructor_and_modifiers\.Rd$
 ^man/dot-apply_modifiers\.Rd$
 ^man/handle_vertex_type_arg\.Rd$
+^vendor\.sh$
+^vendor-one\.sh$
+^patch$

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

@@ -108,14 +108,15 @@ jobs:
           # Beware of using dev pkgdown here, has brought in dev dependencies in the past
           extra-packages: any::rcmdcheck r-lib/roxygen2 any::decor r-lib/styler r-lib/pkgdown deps::.
 
+      - uses: ./.github/workflows/custom/after-install
+        if: hashFiles('.github/workflows/custom/after-install/action.yml') != ''
+
+      # Must come after the custom after-install workflow
       - name: Install package
         run: |
           _R_SHLIB_STRIP_=true R CMD INSTALL .
         shell: bash
 
-      - uses: ./.github/workflows/custom/after-install
-        if: hashFiles('.github/workflows/custom/after-install/action.yml') != ''
-
       - id: versions-matrix
         # Only run for pull requests if the base repo is different from the head repo, not for workflow_dispatch if not requested, always run for other events
         if: (github.event_name != 'pull_request' || github.event.pull_request.head.repo.full_name != github.repository) && (github.event_name != 'workflow_dispatch' || inputs.versions-matrix)

.github/workflows/build-and-check.yml

@@ -0,0 +1,48 @@
+# 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
+on:
+  push:
+    branches:
+      - main
+      - fix/*
+  pull_request:
+    branches:
+      - main
+      - fix/*
+  schedule:
+    - cron: '0 2 * * *'
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}-${{ github.head_ref || github.sha }}-${{ github.base_ref || '' }}
+  cancel-in-progress: true
+
+name: R-CMD-check-extra
+
+jobs:
+  sanitizer:
+    runs-on: ubuntu-22.04
+
+    name: Sanitizer
+
+    steps:
+      - uses: actions/checkout@v2
+        with:
+          fetch-depth: 0
+
+      - name: apt update
+        run: |
+          sudo apt-get update
+          sudo apt-get install -y libarpack2-dev
+        shell: bash
+
+      - name: run sanitizer
+        uses: addnab/docker-run-action@v3
+        with:
+          image: ghcr.io/krlmlr/rigraph-san:main
+          options: --rm --platform linux/amd64 -v ${{ github.workspace }}:/rigraph
+          run: |
+            set -e
+            printenv
+            cd rigraph
+            RDcsan CMD INSTALL . --no-byte-compile
+            TESTTHAT_PARALLEL=false CI=true RDcsan -q -e 'testthat::test_local(reporter = c("location", "summary"), load_package = "installed")'

.github/workflows/custom/after-install/action.yml

@@ -0,0 +1,10 @@
+name: 'Custom steps to run after R packages are installed'
+
+runs:
+  using: "composite"
+  steps:
+    - name: Use GLPK on macOS
+      if: runner.os == 'macOS'
+      run: |
+        echo -e 'CPPFLAGS = -I/opt/homebrew/include\nLDFLAGS = -L/opt/homebrew/lib' | tee ~/.R/Makevars
+      shell: bash

.github/workflows/custom/before-install/action.yml

@@ -7,3 +7,9 @@ runs:
       run: |
         echo '_R_CHECK_PKG_SIZES_=FALSE' | tee -a $GITHUB_ENV
       shell: bash
+
+    - name: Install GLPK on macOS
+      if: runner.os == 'macOS'
+      run: |
+        brew install glpk
+      shell: bash

.github/workflows/each.yaml

@@ -0,0 +1,50 @@
+# Helper workflow to trigger rcc for each commit on a branch
+
+on:
+  push:
+    branches:
+      - each-*
+
+name: each-rcc
+
+jobs:
+  each-rcc:
+    runs-on: ubuntu-24.04
+    outputs:
+      sha: ${{ steps.commit.outputs.sha }}
+      versions-matrix: ${{ steps.versions-matrix.outputs.matrix }}
+      dep-suggests-matrix: ${{ steps.dep-suggests-matrix.outputs.matrix }}
+
+    name: "Trigger rcc workflow for each commit"
+
+    # Begin custom: services
+    # End custom: services
+
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          ref: ${{ inputs.ref }}
+          fetch-depth: 0
+
+      - name: Enumerate all commits from the repository's main branch
+        env:
+          GH_TOKEN: ${{ github.token }}
+        run: |
+          # Get name of main branch of repository
+          # origin/HEAD isn't known here
+          main=$(git remote show origin | grep 'HEAD branch' | cut -d' ' -f5)
+          commits=$(git log --reverse --pretty=format:"%H" origin/${main}.. --)
+          echo $commits
+
+          # Run workflow for each commit where the status of the rcc workflow isn't "pending" or "success"
+          for commit in $commits; do
+            echo $commit
+            # Get first status of the workflow with the name "rcc"
+            status=$(gh api repos/{owner}/{repo}/commits/${commit}/statuses | jq -r '.[] | select(.context == "rcc") | .state' | head -n 1)
+            echo $status
+            if [[ "$status" != "pending" && "$status" != "success" ]]; then
+              echo "Running rcc for commit $commit"
+              gh workflow run rcc -f ref=$commit -r ${{ github.ref }}
+            fi
+          done
+        shell: bash

.github/workflows/fledge.yaml

@@ -46,6 +46,7 @@ jobs:
       - uses: actions/checkout@v4
         with:
           fetch-depth: 0
+          fetch-tags: true
 
       - name: Configure Git identity
         run: |
@@ -103,10 +104,14 @@ jobs:
         env:
           GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
         run: |
-          set -x
-          gh pr create --base main --head fledge --fill-first
-          gh workflow run rcc -f ref=$(git rev-parse HEAD)
-          gh pr merge --squash --auto
+          set -ex
+          if [ -n "$(git diff main --numstat)" ]; then
+            gh pr create --base main --head fledge --fill-first
+            gh workflow run rcc -f ref=$(git rev-parse HEAD)
+            gh pr merge --squash --auto
+          else
+            echo "No changes."
+          fi
         shell: bash
 
       - name: Check release

.github/workflows/lock.yaml

@@ -12,7 +12,7 @@ jobs:
   lock:
     runs-on: ubuntu-24.04
     steps:
-      - uses: dessant/lock-threads@v5
+      - uses: krlmlr/lock-threads@patch-1
         with:
           github-token: ${{ github.token }}
           issue-inactive-days: "365"

.gitignore

@@ -20,3 +20,4 @@ cran
 /docs
 /compile_commands.json
 /.cache
+/rchk