updating github actions file #156
Workflow file for this run
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| name: CI | |
| on: | |
| push: | |
| branches-ignore: | |
| pull_request: | |
| branches: [ main ] | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| # Runs the workflow once per day at 3:15am | |
| schedule: | |
| - cron: '3 16 * * *' | |
| env: | |
| CACHE_NUMBER: 1 # increase to reset cache manually | |
| jobs: | |
| tests: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: checkout repo content | |
| uses: actions/checkout@v2 | |
| - name: setup-conda-environment | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| python-version: "3.12" | |
| auto-update-conda: true | |
| conda-remove-defaults: true | |
| - name: run-fenics-snakemake-benchmarks | |
| shell: bash -l {0} | |
| run: | | |
| conda install --override-channels -c conda-forge -c bioconda snakemake | |
| cd $GITHUB_WORKSPACE/benchmarks/linear-elasticity-plate-with-hole/ | |
| snakemake --use-conda --force --cores 'all' | |
| - name: run-Kratos-snakemake-benchmarks | |
| shell: bash -l {0} | |
| run: | | |
| cd $GITHUB_WORKSPACE/benchmarks/linear-elasticity-plate-with-hole-Kratos/ | |
| snakemake --use-conda --force --cores 'all' | |
| - name: run-fenics-nextflow-benchmark | |
| shell: bash -l {0} | |
| run: | | |
| conda install --override-channels -c bioconda -c conda-forge nextflow=25.04.6 | |
| cd $GITHUB_WORKSPACE/benchmarks/linear-elasticity-plate-with-hole-nextflow/ | |
| nextflow run main.nf | |
| #- name: run-optimization-workflow | |
| # shell: bash -l {0} | |
| # run: | | |
| # cd $GITHUB_WORKSPACE/usecases/optimization_paper/optimization_workflow/ | |
| # snakemake -c 1 | |
| #- name: run-optimization-paper | |
| # shell: bash -l {0} | |
| # run: | | |
| # cd $GITHUB_WORKSPACE/usecases/optimization_paper/ | |
| # doit | |
| - name: Archive fenics data | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: fenics-output | |
| path: | | |
| benchmarks/linear-elasticity-plate-with-hole/data | |
| - name: Archive kratos data | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: kratos-output | |
| path: | | |
| benchmarks/linear-elasticity-plate-with-hole-Kratos/data |