add some gha

InseeFr · Apr 10, 2024 · 0778bf2 · 0778bf2
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commit 0778bf2
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diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml
@@ -46,7 +46,7 @@ jobs:
       - uses: r-lib/actions/setup-pandoc@v2
 
       - name: Setup java (x64)
-        uses: actions/setup-java@v3
+        uses: actions/setup-java@v4
         if: matrix.java != '19'
         with:
           java-version: ${{ matrix.java }}
@@ -55,7 +55,7 @@ jobs:
           architecture: x64
 
       - name: Setup java (x64)
-        uses: actions/setup-java@v3
+        uses: actions/setup-java@v4
         if: matrix.java == '19'
         with:
           java-version: ${{ matrix.java }}
@@ -64,7 +64,7 @@ jobs:
           architecture: x64
 
       - name: Setup java (x86)
-        uses: actions/setup-java@v3
+        uses: actions/setup-java@v4
         if: runner.os == 'windows' && matrix.java != '19'
         with:
           java-version: ${{ matrix.java }}
@@ -73,7 +73,7 @@ jobs:
           architecture: x86
 
       - name: Setup java (x86)
-        uses: actions/setup-java@v3
+        uses: actions/setup-java@v4
         if: runner.os == 'windows' && matrix.java == '19'
         with:
           java-version: ${{ matrix.java }}

diff --git a/.github/workflows/pr-commands.yaml b/.github/workflows/pr-commands.yaml
@@ -0,0 +1,139 @@
+# 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:
+  issue_comment:
+    types: [created]
+
+name: Commands
+
+jobs:
+  document:
+    if: ${{ github.event.issue.pull_request && (github.event.comment.author_association == 'MEMBER' || github.event.comment.author_association == 'OWNER') && startsWith(github.event.comment.body, '/document') }}
+    name: document
+    runs-on: ubuntu-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+    steps:
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - uses: r-lib/actions/pr-fetch@v2
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
+
+      - uses: actions/setup-java@v4
+        with:
+          distribution: 'zulu' # See 'Supported distributions' for available options
+          java-version: '17'
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - name: Set up for RProtoBuf
+        run: sudo apt-get update -y && sudo apt-get install protobuf-compiler libprotobuf-dev libprotoc-dev
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::roxygen2
+          needs: pr-document
+
+      - name: Document
+        run: roxygen2::roxygenise()
+        shell: Rscript {0}
+
+      - name: Config git
+        run: |
+          git config --local user.name "$GITHUB_ACTOR"
+          git config --local user.email "$GITHUB_ACTOR@users.noreply.github.com"
+
+      # Check if there are any changes
+      - name: Check for changes
+        id: check-changes
+        run: |
+          if git diff --quiet -- NAMESPACE man/; then
+            echo "has-changed=false" >> "$GITHUB_OUTPUT"
+          else
+            echo "has-changed=true" >> "$GITHUB_OUTPUT"
+          fi
+          
+      - name: Commit the changes
+        if: ${{ steps.check-changes.outputs.has-changed == 'true' }}
+        run: |
+          git add man/\* NAMESPACE
+          git commit -m '[GHA] Document package'
+
+      # Commit changes or a placeholder commit if no changes
+      - name: Commit no changes
+        if: ${{ steps.check-changes.outputs.has-changed == 'false' }}
+        run: |
+          git commit --allow-empty -m '[GHA] Package already documented'
+
+      - uses: r-lib/actions/pr-push@v2
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
+
+  style:
+    if: ${{ github.event.issue.pull_request && (github.event.comment.author_association == 'MEMBER' || github.event.comment.author_association == 'OWNER') && startsWith(github.event.comment.body, '/style') }}
+    name: style
+    runs-on: ubuntu-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+    steps:
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/pr-fetch@v2
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
+
+      - uses: actions/setup-java@v4
+        with:
+          distribution: 'zulu' # See 'Supported distributions' for available options
+          java-version: '17'
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - name: Set up for RProtoBuf
+        run: sudo apt-get update -y && sudo apt-get install protobuf-compiler libprotobuf-dev libprotoc-dev
+
+      - name: Install dependencies
+        run: install.packages("styler")
+        shell: Rscript {0}
+
+      - name: Style
+        run: styler::style_pkg(transformers = styler::tidyverse_style(indent_by = 4))
+        shell: Rscript {0}
+
+      - name: Config git
+        run: |
+          git config --local user.name "$GITHUB_ACTOR"
+          git config --local user.email "$GITHUB_ACTOR@users.noreply.github.com"
+
+      # Check if there are any changes
+      - name: Check for changes
+        id: check-changes
+        run: |
+          if git diff --quiet -- '*.R'; then
+            echo "has-changed=false" >> "$GITHUB_OUTPUT"
+          else
+            echo "has-changed=true" >> "$GITHUB_OUTPUT"
+          fi
+          
+      - name: Commit the changes
+        if: ${{ steps.check-changes.outputs.has-changed == 'true' }}
+        run: |
+          git add \*.R
+          git commit -m '[GHA] Style package'
+
+      # Commit changes or a placeholder commit if no changes
+      - name: Commit no changes
+        if: ${{ steps.check-changes.outputs.has-changed == 'false' }}
+        run: |
+          git commit --allow-empty -m '[GHA] Package already styled'
+
+      - uses: r-lib/actions/pr-push@v2
+        with:
+          repo-token: ${{ secrets.GITHUB_TOKEN }}
diff --git a/.github/workflows/test-coverage.yaml b/.github/workflows/test-coverage.yaml
@@ -0,0 +1,57 @@
+# 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, develop, master]
+  pull_request:
+    branches: [main, develop, master]
+
+name: test-coverage
+
+jobs:
+  test-coverage:
+    runs-on: ubuntu-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - uses: actions/setup-java@v4
+        with:
+          distribution: 'zulu' # See 'Supported distributions' for available options
+          java-version: '17'
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::covr
+          needs: coverage
+
+      - name: Test coverage
+        run: |
+          covr::codecov(
+            quiet = FALSE,
+            clean = FALSE,
+            install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "package")
+          )
+        shell: Rscript {0}
+
+      - name: Show testthat output
+        if: always()
+        run: |
+          ## --------------------------------------------------------------------
+          find '${{ runner.temp }}/package' -name 'testthat.Rout*' -exec cat '{}' \; || true
+        shell: bash
+
+      - name: Upload test results
+        if: failure()
+        uses: actions/upload-artifact@v4
+        with:
+          name: coverage-test-failures
+          path: ${{ runner.temp }}/package
diff --git a/.lintr b/.lintr
@@ -1,7 +1,7 @@
 linters: linters_with_defaults(
         object_name_linter = NULL,
         cyclocomp_linter = NULL,
-        line_length_linter = NULL,
+        #line_length_linter = NULL,
         commented_code_linter = NULL,
         indentation_linter(indent = 4L)
     )