Refactor get_spectrum to no longer accept ROI as a string #7742
Workflow file for this run
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| name: Testing with conda | |
| on: | |
| push: | |
| branches: | |
| - 'main' | |
| - 'release-*' | |
| pull_request: | |
| paths: | |
| - '**' | |
| - '!docs/**' | |
| release: | |
| merge_group: | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| # Needed to get tags so that git describe works during package build | |
| fetch-depth: "0" | |
| - name: Get Date | |
| id: get-date | |
| run: | | |
| echo "date=$(/bin/date -u "+%Y%V")" >> $GITHUB_OUTPUT | |
| shell: bash | |
| - name: Cache Miniforge and Pip packages | |
| uses: actions/cache@v4 | |
| env: | |
| CACHE_NUMBER: 0 | |
| with: | |
| path: | | |
| ~/conda_pkgs_dir | |
| ~/.cache/pip | |
| key: | |
| ${{runner.os}}-condapkg-${{env.CACHE_NUMBER}}-${{steps.get-date.outputs.date}}-${{hashFiles('environment-dev.yml','conda/meta.yaml')}} | |
| - name: Cache Miniforge environment | |
| uses: actions/cache@v4 | |
| id: cache-miniforge-environment | |
| env: | |
| CACHE_NUMBER: 0 | |
| with: | |
| path: ${CONDA}/envs/mantidimaging-dev.cache | |
| key: | |
| ${{runner.os}}-condaenv-${{env.CACHE_NUMBER}}-${{steps.get-date.outputs.date}}-${{hashFiles('environment-dev.yml','conda/meta.yaml', 'setup.py')}} | |
| - name: Setup Miniforge | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| miniforge-version: latest | |
| activate-environment: mantidimaging-dev | |
| auto-activate-base: false | |
| use-mamba: true | |
| - name: Mantid Imaging developer dependencies | |
| if: steps.cache-miniforge-environment.outputs.cache-hit != 'true' | |
| shell: bash -l {0} | |
| run: | | |
| conda deactivate | |
| python3 ./setup.py create_dev_env | |
| cp -Ta ${CONDA}/envs/mantidimaging-dev ${CONDA}/envs/mantidimaging-dev.cache | |
| - name: Mantid Imaging developer dependencies - from cache | |
| if: steps.cache-miniforge-environment.outputs.cache-hit == 'true' | |
| shell: bash -l {0} | |
| run: | | |
| cp -Ta ${CONDA}/envs/mantidimaging-dev.cache ${CONDA}/envs/mantidimaging-dev | |
| - name: Other dependencies | |
| shell: bash -l {0} | |
| run: | | |
| sudo apt update -y | |
| sudo apt-get install -y xvfb libxcb* libxkb* | |
| - name: List versions | |
| shell: bash -l {0} | |
| run: | | |
| mamba env list | |
| python --version; mamba list ; pip list | |
| - name: Yapf | |
| shell: bash -l {0} | |
| run: | | |
| yapf --parallel --diff --recursive . | |
| - name: Ruff | |
| shell: bash -l {0} | |
| run: | | |
| ruff check . | |
| - name: mypy | |
| shell: bash -l {0} | |
| run: | | |
| mypy --ignore-missing-imports mantidimaging | |
| - name: pyright | |
| shell: bash -l {0} | |
| run: | | |
| pyright mantidimaging | |
| - name: pytest | |
| timeout-minutes: 10 | |
| shell: bash -l {0} | |
| run: | | |
| xvfb-run --auto-servernum python -m pytest --cov --cov-report=xml -n auto -o log_cli=true --ignore=mantidimaging/eyes_tests --durations=10 | |
| - name: Get test data | |
| shell: bash -l {0} | |
| run: | | |
| wget -nv https://github.com/mantidproject/mantidimaging-data/archive/refs/tags/small.zip | |
| unzip -q small.zip -d ~ | |
| mv ~/mantidimaging-data-small ~/mantidimaging-data | |
| timeout-minutes: 5 | |
| - name: GUI Tests System | |
| shell: bash -l {0} | |
| run: | | |
| xvfb-run --auto-servernum /bin/time -v python -m pytest -vs -rs -p no:xdist -p no:randomly -p no:repeat -p no:cov -o log_cli=true --run-system-tests --durations=10 | |
| timeout-minutes: 30 | |
| - name: GUI Tests Screenshots Applitools | |
| if: github.event_name == 'pull_request' | |
| shell: bash -l {0} | |
| env: | |
| APPLITOOLS_API_KEY: ${{ secrets.APPLITOOLS_API_KEY }} | |
| APPLITOOLS_BATCH_ID: ${{ github.sha }} | |
| GITHUB_BRANCH_NAME: ${{ github.head_ref }} | |
| run: | | |
| xvfb-run --auto-servernum /bin/time -v python -m pytest -vs -rs -p no:xdist -p no:randomly -p no:repeat -p no:cov -o log_cli=true mantidimaging/eyes_tests --run-eyes-tests --durations=10 | |
| timeout-minutes: 15 | |
| - name: Coveralls | |
| shell: bash -l {0} | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| coveralls --service=github | |
| # Always label as unstable. Builds of stable releases can be manually labeled to 'main' once tested | |
| - name: publish 'unstable' package | |
| if: github.event_name == 'release' || (github.event_name == 'push' && (github.ref == 'refs/heads/main' || startsWith(github.ref, 'refs/heads/release'))) | |
| uses: ./.github/actions/publish-package | |
| with: | |
| label: unstable | |
| token: ${{ secrets.ANACONDA_API_TOKEN_MANTIDIMAGING }} | |
| token-old: ${{ secrets.ANACONDA_API_TOKEN }} |