P/37477/sheaf cohomology test #562
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| name: Build & Test | |
| on: | |
| pull_request: | |
| merge_group: | |
| push: | |
| branches: | |
| - master | |
| - develop | |
| # Ignore pushes on tags to prevent two uploads of codecov reports | |
| tags-ignore: ['**'] | |
| workflow_dispatch: | |
| # Allow to run manually | |
| inputs: | |
| platform: | |
| description: 'Platform' | |
| required: true | |
| default: 'ubuntu-jammy-standard' | |
| docker_tag: | |
| description: 'Docker tag' | |
| required: true | |
| default: 'dev' | |
| concurrency: | |
| # Cancel previous runs of this workflow for the same branch | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| # | |
| # The three workflows: | |
| # | |
| # - build.yml (with jobs test-new, test-mod, test-long), | |
| # - doc-build.yml, | |
| # - doc-build-pdf.yml | |
| # | |
| # each build Sage: | |
| # | |
| # - incrementally starting from a Docker image that ci-linux.yml | |
| # publishes on each development release to ghcr.io, | |
| # - orchestrated using a tox-generated Dockerfile, | |
| # - using https://github.com/marketplace/actions/build-and-push-docker-images, | |
| # - pushing the image to a local registry, | |
| # - then executing a container loaded from that registry, | |
| # | |
| # and then run various tests or build the documentation. | |
| # | |
| # Without the use of a cache, this runs the same incremental rebuild of Sage | |
| # multiple times; there is no interaction between these workflow and jobs. | |
| # | |
| # This baseline is transparently improved by our use of the GH Actions cache, | |
| # see https://docs.docker.com/build/ci/github-actions/cache/#cache-backend-api. | |
| # | |
| # Jobs test-mod and test-long are only started after test-new completed; | |
| # but the workflows doc-build.yml and doc-build-pdf.yml are started independently. | |
| # | |
| # - When nothing is cached and the 3 workflows are launched in parallel, | |
| # they may each run the same incremental rebuild. | |
| # | |
| # - When there's congestion that leads to the workflows to be run serially, | |
| # the 2nd and 3rd workflow will be able to use the cache from the 1st workflow. | |
| # | |
| # This elasticity may be helpful in reducing congestion. | |
| # | |
| # There is a rather small per-project limit of 10 GB for this cache. | |
| # Use https://github.com/sagemath/sage/actions/caches to monitor the utilization | |
| # of the cache. | |
| # | |
| env: | |
| # Adapted from docker.yml | |
| TOX_ENV: "docker-${{ github.event.inputs.platform || 'ubuntu-jammy-standard' }}-incremental" | |
| BUILD_IMAGE: "localhost:5000/${{ github.repository }}/sage-${{ github.event.inputs.platform || 'ubuntu-jammy-standard' }}-with-targets:ci" | |
| FROM_DOCKER_REPOSITORY: "ghcr.io/sagemath/sage/" | |
| FROM_DOCKER_TARGET: "with-targets" | |
| FROM_DOCKER_TAG: ${{ github.event.inputs.docker_tag || 'dev'}} | |
| EXTRA_CONFIGURE_ARGS: --enable-fat-binary | |
| jobs: | |
| test-new: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| build_targets: ${{ steps.build-targets.outputs.build_targets }} | |
| services: | |
| # https://docs.docker.com/build/ci/github-actions/local-registry/ | |
| registry: | |
| image: registry:2 | |
| ports: | |
| - 5000:5000 | |
| steps: | |
| - name: Maximize build disk space | |
| uses: easimon/maximize-build-space@v10 | |
| with: | |
| # need space in /var for Docker images | |
| root-reserve-mb: 30000 | |
| remove-dotnet: true | |
| remove-android: true | |
| remove-haskell: true | |
| remove-codeql: true | |
| remove-docker-images: true | |
| - name: Checkout | |
| id: checkout | |
| uses: actions/checkout@v4 | |
| - name: Get changed files and packages | |
| id: changed-files | |
| uses: tj-actions/changed-files@v44 | |
| with: | |
| # File extensions for doctests per sage.doctest.control.skipfile | |
| files_yaml: | | |
| configures: | |
| - 'build/pkgs/*/spkg-configure.m4' | |
| pkgs: | |
| - 'build/pkgs/**' | |
| - 'pkgs/**' | |
| doctests: | |
| - 'src/**/*.{py,pyx,pxd,pxi,sage,spyx,rst,tex}' | |
| - '!src/{setup,conftest*}.py' | |
| - name: Determine targets to build | |
| id: build-targets | |
| run: | | |
| uninstall_targets=$(echo $(for a in '' ${{ steps.changed-files.outputs.configures_all_changed_files }}; do echo $a | sed -E 's,build/pkgs/([a-z0-9][_.a-z0-9]*)/spkg-configure[.]m4 *,\1-uninstall,'; done | sort -u)) | |
| build_targets=$(echo $(for a in '' ${{ steps.changed-files.outputs.pkgs_all_changed_files }}; do SPKG=$(echo $a | sed -E 's,-,_,g;s,(build/)?pkgs/([a-z0-9][-_.a-z0-9]*)/[^ ]* *,\2,;'); if [ -f "build/pkgs/$SPKG/checksums.ini" -o -f "build/pkgs/$SPKG/requirements.txt" -o -f "build/pkgs/$SPKG/spkg-install" ]; then echo "$SPKG-ensure"; fi; done | sort -u)) | |
| if [ -n "$uninstall_targets" ]; then | |
| echo "build_targets=$uninstall_targets reconfigure $build_targets ci-build-with-fallback" >> $GITHUB_OUTPUT | |
| else | |
| echo "build_targets=$build_targets ci-build-with-fallback" >> $GITHUB_OUTPUT | |
| fi | |
| cat $GITHUB_OUTPUT | |
| - uses: actions/checkout@v4 | |
| with: | |
| ref: ${{ github.base_ref }} | |
| path: worktree-base | |
| if: github.base_ref && steps.changed-files.outputs.pkgs_all_changed_files | |
| - name: Compute metrics | |
| run: | | |
| export PATH=build/bin:$PATH | |
| if [ -d worktree-base ]; then | |
| (echo "# $GITHUB_BASE_REF"; SAGE_ROOT=worktree-base sage-package metrics :all:) > base-metrics.txt | |
| (echo "# $GITHUB_REF"; sage-package metrics :all:) > metrics.txt | |
| diff --color=always --width=100 --side-by-side --left-column base-metrics.txt metrics.txt || true | |
| else | |
| sage-package metrics :all: | |
| fi | |
| - name: Install test prerequisites | |
| # From docker.yml | |
| run: | | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get update | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get install tox | |
| sudo apt-get clean | |
| df -h | |
| - name: Merge CI fixes from sagemath/sage | |
| # From docker.yml | |
| # This step needs to happen after the commit sha is put in DOCKER_TAG | |
| # so that multi-stage builds can work correctly. | |
| run: | | |
| mkdir -p upstream | |
| .ci/merge-fixes.sh 2>&1 | tee upstream/ci_fixes.log | |
| env: | |
| GH_TOKEN: ${{ github.token }} | |
| SAGE_CI_FIXES_FROM_REPOSITORIES: ${{ vars.SAGE_CI_FIXES_FROM_REPOSITORIES }} | |
| # Building | |
| - name: Generate Dockerfile | |
| # From docker.yml | |
| run: | | |
| tox -e ${{ env.TOX_ENV }} | |
| cp .tox/${{ env.TOX_ENV }}/Dockerfile . | |
| env: | |
| # Only generate the Dockerfile, do not run 'docker build' here | |
| DOCKER_TARGETS: "" | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3 | |
| with: | |
| driver-opts: network=host | |
| - name: Build Docker image | |
| id: image | |
| uses: docker/build-push-action@v5 | |
| with: | |
| # push and load may not be set together at the moment | |
| # | |
| # We are using "push" (to the local registry) because it was | |
| # more reliable than "load", for which we observed random failure | |
| # conditions in which the built image could not be found. | |
| # | |
| push: ${{ steps.changed-files.outputs.doctests_all_changed_files && true || false }} | |
| load: false | |
| context: . | |
| tags: ${{ env.BUILD_IMAGE }} | |
| target: with-targets | |
| cache-from: type=gha | |
| cache-to: type=gha,mode=max | |
| build-args: | | |
| NUMPROC=6 | |
| USE_MAKEFLAGS=-k V=0 SAGE_NUM_THREADS=4 --output-sync=recurse | |
| TARGETS_PRE=build/make/Makefile | |
| TARGETS=${{ steps.build-targets.outputs.build_targets }} | |
| - name: Start container | |
| id: container | |
| # Try to continue when "exporting to GitHub Actions Cache" failed with timeout | |
| if: (success() || failure()) && steps.changed-files.outputs.doctests_all_changed_files | |
| run: | | |
| docker run --name BUILD -dit \ | |
| --mount type=bind,src=$(pwd),dst=$(pwd) \ | |
| --workdir $(pwd) \ | |
| ${{ env.BUILD_IMAGE }} /bin/sh | |
| # Testing | |
| - name: Check that all modules can be imported | |
| if: (success() || failure()) && steps.container.outcome == 'success' && steps.changed-files.outputs.doctests_all_changed_files | |
| run: | | |
| # Increase the length of the lines in the "short summary" | |
| export COLUMNS=120 | |
| # The following command checks that all modules can be imported. | |
| # The output also includes a long list of modules together with the number of tests in each module. | |
| # This can be ignored. | |
| ./sage -python -m pip install pytest-xdist | |
| ./sage -python -m pytest -c tox.ini -qq --doctest --collect-only || true | |
| shell: sh .ci/docker-exec-script.sh BUILD /sage {0} | |
| - name: Test changed files (sage -t --new) | |
| if: (success() || failure()) && steps.container.outcome == 'success' && steps.changed-files.outputs.doctests_all_changed_files | |
| run: | | |
| export MAKE="make -j2 --output-sync=recurse" SAGE_NUM_THREADS=4 | |
| # https://github.com/tj-actions/changed-files?tab=readme-ov-file#outputs- | |
| ./sage -t --long --format github -p4 ${{ steps.changed-files.outputs.doctests_all_changed_files }} | |
| shell: sh .ci/docker-exec-script.sh BUILD /sage {0} | |
| test-mod: | |
| runs-on: ubuntu-latest | |
| needs: [test-new] | |
| services: | |
| # https://docs.docker.com/build/ci/github-actions/local-registry/ | |
| registry: | |
| image: registry:2 | |
| ports: | |
| - 5000:5000 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| targets: | |
| - sagemath_categories-check | |
| steps: | |
| - name: Maximize build disk space | |
| uses: easimon/maximize-build-space@v10 | |
| with: | |
| # need space in /var for Docker images | |
| root-reserve-mb: 30000 | |
| remove-dotnet: true | |
| remove-android: true | |
| remove-haskell: true | |
| remove-codeql: true | |
| remove-docker-images: true | |
| - name: Checkout | |
| id: checkout | |
| uses: actions/checkout@v4 | |
| - name: Install test prerequisites | |
| # From docker.yml | |
| run: | | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get update | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get install tox | |
| sudo apt-get clean | |
| df -h | |
| - name: Merge CI fixes from sagemath/sage | |
| # From docker.yml | |
| # This step needs to happen after the commit sha is put in DOCKER_TAG | |
| # so that multi-stage builds can work correctly. | |
| run: | | |
| .ci/merge-fixes.sh | |
| env: | |
| GH_TOKEN: ${{ github.token }} | |
| # Building | |
| - name: Generate Dockerfile | |
| # From docker.yml | |
| run: | | |
| tox -e ${{ env.TOX_ENV }} | |
| cp .tox/${{ env.TOX_ENV }}/Dockerfile . | |
| env: | |
| # Only generate the Dockerfile, do not run 'docker build' here | |
| DOCKER_TARGETS: "" | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3 | |
| with: | |
| driver-opts: network=host | |
| - name: Build Docker image | |
| id: image | |
| uses: docker/build-push-action@v5 | |
| with: | |
| push: true | |
| load: false | |
| context: . | |
| tags: ${{ env.BUILD_IMAGE }} | |
| target: with-targets | |
| cache-from: type=gha | |
| cache-to: type=gha,mode=max | |
| build-args: | | |
| NUMPROC=6 | |
| USE_MAKEFLAGS=-k V=0 SAGE_NUM_THREADS=4 --output-sync=recurse | |
| TARGETS_PRE=build/make/Makefile | |
| TARGETS=${{ needs.test-new.outputs.build_targets }} | |
| - name: Start container | |
| id: container | |
| if: (success() || failure()) | |
| run: | | |
| docker run --name BUILD -dit \ | |
| --mount type=bind,src=$(pwd),dst=$(pwd) \ | |
| --workdir $(pwd) \ | |
| ${{ env.BUILD_IMAGE }} /bin/sh | |
| # Testing | |
| - name: Test modularized distributions | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| run: | | |
| export MAKE="make -j2 --output-sync=recurse" SAGE_NUM_THREADS=4 | |
| make V=0 tox-ensure && make ${{ matrix.targets }} | |
| shell: sh .ci/docker-exec-script.sh BUILD /sage {0} | |
| test-long: | |
| runs-on: ubuntu-latest | |
| needs: [test-new] | |
| services: | |
| # https://docs.docker.com/build/ci/github-actions/local-registry/ | |
| registry: | |
| image: registry:2 | |
| ports: | |
| - 5000:5000 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| tests: | |
| - "src/sage/[a-f]*" | |
| - "src/sage/[g-o]*" | |
| - "src/sage/[p-z]*" | |
| - "src/doc src/sage_docbuild src/sage_setup" | |
| steps: | |
| - name: Maximize build disk space | |
| uses: easimon/maximize-build-space@v10 | |
| with: | |
| # need space in /var for Docker images | |
| root-reserve-mb: 30000 | |
| remove-dotnet: true | |
| remove-android: true | |
| remove-haskell: true | |
| remove-codeql: true | |
| remove-docker-images: true | |
| - name: Checkout | |
| id: checkout | |
| uses: actions/checkout@v4 | |
| - name: Install test prerequisites | |
| # From docker.yml | |
| run: | | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get update | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get install tox | |
| sudo apt-get clean | |
| df -h | |
| - name: Merge CI fixes from sagemath/sage | |
| # From docker.yml | |
| # This step needs to happen after the commit sha is put in DOCKER_TAG | |
| # so that multi-stage builds can work correctly. | |
| run: | | |
| .ci/merge-fixes.sh | |
| env: | |
| GH_TOKEN: ${{ github.token }} | |
| # Building | |
| - name: Generate Dockerfile | |
| # From docker.yml | |
| run: | | |
| tox -e ${{ env.TOX_ENV }} | |
| cp .tox/${{ env.TOX_ENV }}/Dockerfile . | |
| env: | |
| # Only generate the Dockerfile, do not run 'docker build' here | |
| DOCKER_TARGETS: "" | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3 | |
| with: | |
| driver-opts: network=host | |
| - name: Build Docker image | |
| id: image | |
| uses: docker/build-push-action@v5 | |
| with: | |
| push: true | |
| load: false | |
| context: . | |
| tags: ${{ env.BUILD_IMAGE }} | |
| target: with-targets | |
| cache-from: type=gha | |
| cache-to: type=gha,mode=max | |
| build-args: | | |
| NUMPROC=6 | |
| USE_MAKEFLAGS=-k V=0 SAGE_NUM_THREADS=4 --output-sync=recurse | |
| TARGETS_PRE=build/make/Makefile | |
| TARGETS=${{ needs.test-new.outputs.build_targets }} | |
| - name: Start container | |
| id: container | |
| if: (success() || failure()) | |
| run: | | |
| docker run --name BUILD -dit \ | |
| --mount type=bind,src=$(pwd),dst=$(pwd) \ | |
| --workdir $(pwd) \ | |
| ${{ env.BUILD_IMAGE }} /bin/sh | |
| # Testing | |
| - name: Test all files (sage -t --long ${{ matrix.tests }}) | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| run: | | |
| mkdir .coverage | |
| rm -rf /sage/.coverage | |
| ln -s $(pwd)/.coverage /sage/ | |
| cd /sage | |
| ./sage -python -m pip install coverage | |
| ./sage -python -m coverage run --rcfile=src/tox.ini src/bin/sage-runtests --force-lib --long -p4 --format github --random-seed=286735480429121101562228604801325644303 ${{ matrix.tests }} | |
| shell: sh .ci/docker-exec-script.sh BUILD . {0} | |
| - name: Combine coverage results | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| run: | | |
| ./sage -python -m coverage combine --rcfile=src/tox.ini | |
| shell: sh .ci/docker-exec-script.sh BUILD /sage {0} | |
| - name: Prepare upload | |
| id: copy-coverage | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| run: | | |
| echo tests_id=$(echo "${{ matrix.tests }}" | sed -E 's, +,--,g;s,/,_,g;s/[^-_A-Za-z]//g;') >> "$GITHUB_OUTPUT" | |
| - name: Upload coverage results | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: coverage-${{ steps.copy-coverage.outputs.tests_id }} | |
| path: .coverage | |
| coverage-report: | |
| runs-on: ubuntu-latest | |
| needs: [test-long] | |
| if: (success() || failure()) | |
| services: | |
| # https://docs.docker.com/build/ci/github-actions/local-registry/ | |
| registry: | |
| image: registry:2 | |
| ports: | |
| - 5000:5000 | |
| steps: | |
| - name: Maximize build disk space | |
| uses: easimon/maximize-build-space@v10 | |
| with: | |
| # need space in /var for Docker images | |
| root-reserve-mb: 30000 | |
| remove-dotnet: true | |
| remove-android: true | |
| remove-haskell: true | |
| remove-codeql: true | |
| remove-docker-images: true | |
| - name: Checkout | |
| id: checkout | |
| uses: actions/checkout@v4 | |
| - name: Install test prerequisites | |
| # From docker.yml | |
| run: | | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get update | |
| sudo DEBIAN_FRONTEND=noninteractive apt-get install tox | |
| sudo apt-get clean | |
| df -h | |
| - name: Merge CI fixes from sagemath/sage | |
| # From docker.yml | |
| # This step needs to happen after the commit sha is put in DOCKER_TAG | |
| # so that multi-stage builds can work correctly. | |
| run: | | |
| .ci/merge-fixes.sh | |
| env: | |
| GH_TOKEN: ${{ github.token }} | |
| # Building | |
| - name: Generate Dockerfile | |
| # From docker.yml | |
| run: | | |
| tox -e ${{ env.TOX_ENV }} | |
| cp .tox/${{ env.TOX_ENV }}/Dockerfile . | |
| env: | |
| # Only generate the Dockerfile, do not run 'docker build' here | |
| DOCKER_TARGETS: "" | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3 | |
| with: | |
| driver-opts: network=host | |
| - name: Build Docker image | |
| id: image | |
| uses: docker/build-push-action@v5 | |
| with: | |
| push: true | |
| load: false | |
| context: . | |
| tags: ${{ env.BUILD_IMAGE }} | |
| target: with-targets | |
| cache-from: type=gha | |
| cache-to: type=gha,mode=max | |
| build-args: | | |
| NUMPROC=6 | |
| USE_MAKEFLAGS=-k V=0 SAGE_NUM_THREADS=4 --output-sync=recurse | |
| TARGETS_PRE=build/make/Makefile | |
| TARGETS=${{ needs.test-new.outputs.build_targets }} | |
| - name: Start container | |
| id: container | |
| if: (success() || failure()) | |
| run: | | |
| docker run --name BUILD -dit \ | |
| --mount type=bind,src=$(pwd),dst=$(pwd) \ | |
| --workdir $(pwd) \ | |
| ${{ env.BUILD_IMAGE }} /bin/sh | |
| # Combining | |
| - name: Download coverage artifacts | |
| uses: actions/download-artifact@v4 | |
| with: | |
| path: .coverage | |
| pattern: coverage-* | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| - name: Coverage report | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| # Using --omit to avoid "CoverageWarning: Couldn't parse '/tmp/tmp06qizzie/tmp_ldpu46ob.py': No source for code" | |
| run: | | |
| rm -rf /sage/.coverage | |
| ln -s $(pwd)/.coverage /sage/ | |
| cd /sage | |
| ./sage -python -m pip install coverage | |
| ./sage -python -m coverage combine --rcfile=src/tox.ini .coverage/coverage-*/.coverage | |
| ./sage -python -m coverage xml --rcfile=src/tox.ini --omit="/tmp/*" | |
| mkdir -p .coverage/coverage-report | |
| mv coverage.xml .coverage/coverage-report/ | |
| shell: sh .ci/docker-exec-script.sh BUILD . {0} | |
| - name: Upload coverage to codecov | |
| if: (success() || failure()) && steps.container.outcome == 'success' | |
| uses: codecov/codecov-action@v4 | |
| with: | |
| directory: .coverage/coverage-report |