Merge pull request #63 from ClickHouse/try-fix-abort #71
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| # Licensed to the Apache Software Foundation (ASF) under one | |
| # or more contributor license agreements. See the NOTICE file | |
| # distributed with this work for additional information | |
| # regarding copyright ownership. The ASF licenses this file | |
| # to you under the Apache License, Version 2.0 (the | |
| # "License"); you may not use this file except in compliance | |
| # with the License. You may obtain a copy of the License at | |
| # | |
| # http://www.apache.org/licenses/LICENSE-2.0 | |
| # | |
| # Unless required by applicable law or agreed to in writing, | |
| # software distributed under the License is distributed on an | |
| # "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY | |
| # KIND, either express or implied. See the License for the | |
| # specific language governing permissions and limitations | |
| # under the License. | |
| name: R | |
| on: | |
| push: | |
| paths: | |
| - ".github/workflows/r.yml" | |
| - "ci/scripts/r_*.sh" | |
| - "ci/scripts/cpp_*.sh" | |
| - "ci/scripts/PKGBUILD" | |
| - "ci/etc/rprofile" | |
| - "ci/docker/**" | |
| - "cpp/**" | |
| - "r/**" | |
| pull_request: | |
| paths: | |
| - ".github/workflows/r.yml" | |
| - "ci/scripts/r_*.sh" | |
| - "ci/scripts/cpp_*.sh" | |
| - "ci/scripts/PKGBUILD" | |
| - "ci/etc/rprofile" | |
| - "ci/docker/**" | |
| - "cpp/**" | |
| - "r/**" | |
| concurrency: | |
| group: ${{ github.repository }}-${{ github.head_ref || github.sha }}-${{ github.workflow }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| env: | |
| DOCKER_VOLUME_PREFIX: ".docker/" | |
| jobs: | |
| ubuntu: | |
| name: AMD64 Ubuntu ${{ matrix.ubuntu }} R ${{ matrix.r }} Force-Tests ${{ matrix.force-tests }} | |
| runs-on: ubuntu-latest | |
| if: ${{ !contains(github.event.pull_request.title, 'WIP') }} | |
| timeout-minutes: 75 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| r: ["4.2"] | |
| ubuntu: [20.04] | |
| force-tests: ["true"] | |
| env: | |
| R: ${{ matrix.r }} | |
| UBUNTU: ${{ matrix.ubuntu }} | |
| steps: | |
| - name: Checkout Arrow | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| submodules: recursive | |
| - name: Cache Docker Volumes | |
| uses: actions/cache@v3 | |
| with: | |
| path: .docker | |
| # As this key is identical on both matrix builds only one will be able to successfully cache, | |
| # this is fine as there are no differences in the build | |
| key: ubuntu-${{ matrix.ubuntu }}-r-${{ matrix.r }}-${{ hashFiles('cpp/src/**/*.cc','cpp/src/**/*.h)') }}-${{ github.run_id }} | |
| restore-keys: | | |
| ubuntu-${{ matrix.ubuntu }}-r-${{ matrix.r }}-${{ hashFiles('cpp/src/**/*.cc','cpp/src/**/*.h)') }}- | |
| ubuntu-${{ matrix.ubuntu }}-r-${{ matrix.r }}- | |
| - name: Setup Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.8 | |
| - name: Setup Archery | |
| run: pip install -e dev/archery[docker] | |
| - name: Execute Docker Build | |
| env: | |
| ARCHERY_DOCKER_USER: ${{ secrets.DOCKERHUB_USER }} | |
| ARCHERY_DOCKER_PASSWORD: ${{ secrets.DOCKERHUB_TOKEN }} | |
| run: | | |
| sudo sysctl -w kernel.core_pattern="core.%e.%p" | |
| ulimit -c unlimited | |
| # Setting a non-default and non-probable Marquesas French Polynesia time | |
| # it has both with a .45 offset and very very few people who live there. | |
| archery docker run -e TZ=MART -e ARROW_R_FORCE_TESTS=${{ matrix.force-tests }} ubuntu-r | |
| - name: Dump install logs | |
| run: cat r/check/arrow.Rcheck/00install.out | |
| if: always() | |
| - name: Dump test logs | |
| run: cat r/check/arrow.Rcheck/tests/testthat.Rout* | |
| if: always() | |
| - name: Save the test output | |
| if: always() | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: test-output | |
| path: r/check/arrow.Rcheck/tests/testthat.Rout* | |
| - name: Docker Push | |
| if: >- | |
| success() && | |
| github.event_name == 'push' && | |
| github.repository == 'apache/arrow' && | |
| github.ref_name == 'main' | |
| env: | |
| ARCHERY_DOCKER_USER: ${{ secrets.DOCKERHUB_USER }} | |
| ARCHERY_DOCKER_PASSWORD: ${{ secrets.DOCKERHUB_TOKEN }} | |
| continue-on-error: true | |
| run: archery docker push ubuntu-r | |
| bundled: | |
| name: "${{ matrix.config.org }}/${{ matrix.config.image }}:${{ matrix.config.tag }}" | |
| runs-on: ubuntu-latest | |
| if: ${{ !contains(github.event.pull_request.title, 'WIP') }} | |
| timeout-minutes: 60 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - { org: "rhub", image: "debian-gcc-devel", tag: "latest", devtoolset: "" } | |
| env: | |
| R_ORG: ${{ matrix.config.org }} | |
| R_IMAGE: ${{ matrix.config.image }} | |
| R_TAG: ${{ matrix.config.tag }} | |
| DEVTOOLSET_VERSION: ${{ matrix.config.devtoolset }} | |
| steps: | |
| - name: Checkout Arrow | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| submodules: recursive | |
| - name: Setup Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.8 | |
| - name: Setup Archery | |
| run: pip install -e dev/archery[docker] | |
| - name: Execute Docker Build | |
| env: | |
| ARCHERY_DOCKER_USER: ${{ secrets.DOCKERHUB_USER }} | |
| ARCHERY_DOCKER_PASSWORD: ${{ secrets.DOCKERHUB_TOKEN }} | |
| run: | | |
| sudo sysctl -w kernel.core_pattern="core.%e.%p" | |
| ulimit -c unlimited | |
| # Don't set a TZ here to test that case. These builds will have the following warning in them: | |
| # System has not been booted with systemd as init system (PID 1). Can't operate. | |
| # Failed to connect to bus: Host is down | |
| archery docker run -e TZ="" r | |
| - name: Dump install logs | |
| run: cat r/check/arrow.Rcheck/00install.out | |
| if: always() | |
| - name: Dump test logs | |
| run: cat r/check/arrow.Rcheck/tests/testthat.Rout* | |
| if: always() | |
| - name: Save the test output | |
| if: always() | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: test-output | |
| path: r/check/arrow.Rcheck/tests/testthat.Rout* | |
| - name: Docker Push | |
| if: >- | |
| success() && | |
| github.event_name == 'push' && | |
| github.repository == 'apache/arrow' && | |
| github.ref_name == 'main' | |
| env: | |
| ARCHERY_DOCKER_USER: ${{ secrets.DOCKERHUB_USER }} | |
| ARCHERY_DOCKER_PASSWORD: ${{ secrets.DOCKERHUB_TOKEN }} | |
| continue-on-error: true | |
| run: archery docker push r | |
| windows-cpp: | |
| name: AMD64 Windows C++ RTools ${{ matrix.config.rtools }} ${{ matrix.config.arch }} | |
| runs-on: windows-2019 | |
| if: ${{ !contains(github.event.pull_request.title, 'WIP') }} | |
| timeout-minutes: 90 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - { rtools: 40, arch: 'ucrt64' } | |
| steps: | |
| - run: git config --global core.autocrlf false | |
| - name: Checkout Arrow | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Setup ccache | |
| shell: bash | |
| run: | | |
| ci/scripts/ccache_setup.sh | |
| echo "CCACHE_DIR=$(cygpath --absolute --windows ccache)" >> $GITHUB_ENV | |
| - name: Cache ccache | |
| uses: actions/cache@v3 | |
| with: | |
| path: ccache | |
| key: r-${{ matrix.config.rtools }}-ccache-mingw-${{ matrix.config.arch }}-${{ hashFiles('cpp/src/**/*.cc','cpp/src/**/*.h)') }}-${{ github.run_id }} | |
| restore-keys: | | |
| r-${{ matrix.config.rtools }}-ccache-mingw-${{ matrix.config.arch }}-${{ hashFiles('cpp/src/**/*.cc','cpp/src/**/*.h)') }}- | |
| r-${{ matrix.config.rtools }}-ccache-mingw-${{ matrix.config.arch }}- | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: "4.1" | |
| rtools-version: 40 | |
| Ncpus: 2 | |
| - name: Build Arrow C++ | |
| shell: bash | |
| env: | |
| MINGW_ARCH: ${{ matrix.config.arch }} | |
| run: ci/scripts/r_windows_build.sh | |
| - name: Rename libarrow.zip | |
| # So that they're unique when multiple are downloaded in the next step | |
| shell: bash | |
| run: mv libarrow.zip libarrow-rtools${{ matrix.config.rtools }}-${{ matrix.config.arch }}.zip | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: libarrow-rtools${{ matrix.config.rtools }}-${{ matrix.config.arch }}.zip | |
| path: libarrow-rtools${{ matrix.config.rtools }}-${{ matrix.config.arch }}.zip | |
| windows-r: | |
| needs: [windows-cpp] | |
| name: AMD64 Windows R ${{ matrix.config.rversion }} RTools ${{ matrix.config.rtools }} | |
| runs-on: windows-2019 | |
| if: ${{ !contains(github.event.pull_request.title, 'WIP') }} | |
| timeout-minutes: 75 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - { rtools: 42, rversion: "4.2" } | |
| - { rtools: 42, rversion: "devel" } | |
| env: | |
| ARROW_R_CXXFLAGS: "-Werror" | |
| _R_CHECK_TESTS_NLINES_: 0 | |
| steps: | |
| - run: git config --global core.autocrlf false | |
| - name: Checkout Arrow | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - run: mkdir r/windows | |
| - name: Download artifacts | |
| if: ${{ matrix.config.rtools == 42 }} | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: libarrow-rtools40-ucrt64.zip | |
| path: r/windows | |
| - name: Unzip and rezip libarrows | |
| shell: bash | |
| run: | | |
| cd r/windows | |
| ls *.zip | xargs -n 1 unzip -uo | |
| rm -rf *.zip | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.rversion }} | |
| rtools-version: ${{ matrix.config.rtools }} | |
| Ncpus: 2 | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| env: | |
| GITHUB_PAT: "${{ github.token }}" | |
| with: | |
| # For some arcane reason caching does not work on the windows runners | |
| # most likely due to https://github.com/actions/cache/issues/815 | |
| cache: false | |
| working-directory: 'r' | |
| extra-packages: | | |
| any::rcmdcheck | |
| - name: Install MinIO | |
| shell: bash | |
| run: | | |
| mkdir -p "$HOME/.local/bin" | |
| curl \ | |
| --output "$HOME/.local/bin/minio.exe" \ | |
| https://dl.min.io/server/minio/release/windows-amd64/archive/minio.RELEASE.2022-05-26T05-48-41Z | |
| chmod +x "$HOME/.local/bin/minio.exe" | |
| echo "$HOME/.local/bin" >> $GITHUB_PATH | |
| # TODO(ARROW-17149): figure out why the GCS tests are hanging on Windows | |
| # - name: Install Google Cloud Storage Testbench | |
| # shell: bash | |
| # run: ci/scripts/install_gcs_testbench.sh default | |
| - name: Check | |
| shell: Rscript {0} | |
| run: | | |
| # Because we do R CMD build and r/windows is in .Rbuildignore, | |
| # assemble the libarrow.zip file and pass it as an env var | |
| setwd("r/windows") | |
| zip("libarrow.zip", ".") | |
| setwd("..") | |
| Sys.setenv( | |
| RWINLIB_LOCAL = file.path(Sys.getenv("GITHUB_WORKSPACE"), "r", "windows", "libarrow.zip"), | |
| MAKEFLAGS = paste0("-j", parallel::detectCores()), | |
| ARROW_R_DEV = TRUE, | |
| "_R_CHECK_FORCE_SUGGESTS_" = FALSE | |
| ) | |
| rcmdcheck::rcmdcheck(".", | |
| build_args = '--no-build-vignettes', | |
| args = c('--no-manual', '--as-cran', '--ignore-vignettes', '--run-donttest'), | |
| error_on = 'warning', | |
| check_dir = 'check', | |
| timeout = 3600 | |
| ) | |
| - name: Run lintr | |
| if: ${{ matrix.config.rversion == '4.2' }} | |
| env: | |
| NOT_CRAN: "true" | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| shell: Rscript {0} | |
| working-directory: r | |
| run: | | |
| Sys.setenv( | |
| RWINLIB_LOCAL = file.path(Sys.getenv("GITHUB_WORKSPACE"), "r", "windows", "libarrow.zip"), | |
| MAKEFLAGS = paste0("-j", parallel::detectCores()), | |
| ARROW_R_DEV = TRUE, | |
| "_R_CHECK_FORCE_SUGGESTS_" = FALSE | |
| ) | |
| # we use pak for package installation since it is faster, safer and more convenient | |
| pak::local_install() | |
| pak::pak("lintr") | |
| lintr::expect_lint_free() | |
| - name: Dump install logs | |
| shell: cmd | |
| run: cat r/check/arrow.Rcheck/00install.out | |
| if: always() | |
| - name: Dump test logs | |
| shell: bash | |
| run: find r/check -name 'testthat.Rout*' -exec cat '{}' \; || true | |
| if: always() |