[CI] Fix the r-lib action permission issue #2738
Workflow file for this run
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| name: R build | |
| on: | |
| push: | |
| branches: | |
| - master | |
| paths: | |
| - 'common/**' | |
| - 'spark/**' | |
| - 'spark-shaded/**' | |
| - 'pom.xml' | |
| - 'R/**' | |
| - '.github/workflows/r.yml' | |
| pull_request: | |
| branches: | |
| - '*' | |
| paths: | |
| - 'common/**' | |
| - 'spark/**' | |
| - 'spark-shaded/**' | |
| - 'pom.xml' | |
| - 'R/**' | |
| - '.github/workflows/r.yml' | |
| env: | |
| MAVEN_OPTS: -Dmaven.wagon.httpconnectionManager.ttlSeconds=60 | |
| DO_NOT_TRACK: true | |
| jobs: | |
| build: | |
| runs-on: ubuntu-22.04 | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| spark: [3.0.3, 3.1.2, 3.2.1, 3.3.0, 3.4.0, 3.5.0] | |
| hadoop: [3] | |
| scala: [2.12.15] | |
| r: [oldrel, release] | |
| env: | |
| SPARK_VERSION: ${{ matrix.spark }} | |
| HADOOP_VERSION: ${{ matrix.hadoop }} | |
| SCALA_VERSION: ${{ matrix.scala }} | |
| # Ensure the temporary auth token for this workflow, instead of the | |
| # bundled GitHub PAT from the `remotes` package is used for | |
| # `remotes::install_github()` | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Delete existing R binaries | |
| run: | | |
| for b in R Rscript | |
| do | |
| while [ -n "$(which "$b")" ] | |
| do | |
| sudo rm -v "$(which "$b")" | |
| done | |
| done | |
| shell: bash | |
| - name: Delete existing JDK installation(s) | |
| run: | | |
| sudo apt-get -y remove --purge default-jdk adoptopenjdk-11-hotspot || : | |
| shell: bash | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/[email protected] | |
| with: | |
| r-version: ${{ matrix.r }} | |
| use-public-rspm: true | |
| - name: Query R dependencies | |
| uses: r-lib/actions/[email protected] | |
| with: | |
| cache: true | |
| extra-packages: | | |
| any::testthat | |
| any::rcmdcheck | |
| working-directory : './R' | |
| - name: Build and check R package | |
| uses: r-lib/actions/[email protected] | |
| with: | |
| build_args: 'c("--no-build-vignettes", "--no-manual")' | |
| args: 'c("--no-build-vignettes", "--no-manual", "--no-tests")' | |
| error-on: '"error"' | |
| working-directory: './R' | |
| env: | |
| _R_CHECK_FORCE_SUGGESTS_: false | |
| - name: Install apache.sedona from source | |
| run: Rscript -e 'install.packages("./R/", repos = NULL, type = "source")' | |
| - uses: actions/setup-java@v4 | |
| with: | |
| distribution: 'temurin' | |
| java-version: '8' | |
| cache: 'maven' | |
| - name: Get OS name | |
| id: os-name | |
| run: | | |
| # `os_name` will be like "Ubuntu-20.04.1-LTS" | |
| OS_NAME=$(lsb_release -ds | sed 's/\s/-/g') | |
| echo "os-name=$OS_NAME" >> $GITHUB_OUTPUT | |
| - name: Cache Spark installations | |
| if: runner.os != 'Windows' | |
| uses: actions/cache@master | |
| with: | |
| path: ~/spark | |
| key: apache.sedona-apache-spark-${{ steps.os-name.outputs.os-name }}-${{ env.SPARK_VERSION }} | |
| - name: Build Sedona libraries | |
| run: | | |
| SPARK_COMPAT_VERSION="3.0" | |
| if [ ${SPARK_VERSION:2:1} -gt "3" ]; then | |
| SPARK_COMPAT_VERSION=${SPARK_VERSION:0:3} | |
| fi | |
| mvn -q clean install -DskipTests -Dspark=${SPARK_COMPAT_VERSION} -Dscala=${SCALA_VERSION:0:4} | |
| - name: Run tests | |
| run: | | |
| if [[ "${SPARK_VERSION:0:3}" < "3.3" ]]; then | |
| case "$HADOOP_VERSION" in | |
| 3) | |
| export HADOOP_VERSION=3.2 | |
| ;; | |
| 2) | |
| export HADOOP_VERSION=2.7 | |
| ;; | |
| esac | |
| fi | |
| export SPARKLYR_LOG_FILE='/tmp/sparklyr.log' | |
| source ./.github/workflows/scripts/prepare_sparklyr_sedona_test_env.sh | |
| echo "Apache Sedona jar files: ${SEDONA_JAR_FILES}" | |
| cd ./R/tests | |
| NOT_CRAN='true' Rscript testthat.R | |
| shell: bash | |
| - uses: actions/upload-artifact@v3 | |
| if: failure() | |
| with: | |
| name: Worker logs | |
| path: /tmp/sparklyr.log | |
| - name: Dump worker logs on failure | |
| if: failure() | |
| run: cat /tmp/sparklyr.log |