22 integrate the kratos computation into the same snakefile for example linear elastic plate with hole #287
Workflow file for this run
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| name: CI | |
| on: | |
| push: | |
| 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 Mambaforge | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| miniforge-version: latest | |
| activate-environment: model-validation | |
| use-mamba: true | |
| - name: Set strict channel priority | |
| run: conda config --set channel_priority strict | |
| - name: Update environment | |
| run: mamba env update -n model-validation -f environment_benchmarks.yml | |
| - name: run-linear-elastic-plate-with-hole-benchmarks | |
| shell: bash -l {0} | |
| run: | | |
| cd $GITHUB_WORKSPACE/benchmarks/linear-elastic-plate-with-hole/ | |
| python generate_config.py | |
| snakemake --use-conda --force --cores 'all' | |
| snakemake --use-conda --force --cores 'all' --reporter metadata4ing | |
| - name: run-fenics-nextflow-benchmark | |
| shell: bash -l {0} | |
| run: | | |
| cd $GITHUB_WORKSPACE/benchmarks/linear-elastic-plate-with-hole/FEniCS_nextflow/ | |
| nextflow run main.nf -plugins nf-prov@1.4.0 | |
| - name: Archive Linear Elastic plate with a hole benchmark data from snakemake | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: linear-elastic-plate-with-hole_snakemake | |
| path: | | |
| benchmarks/linear-elastic-plate-with-hole/snakemake_results/ | |
| - name: Archive Linear Elastic plate with a hole benchmark data from snakemake provenance | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: linear-elastic-plate-with-hole_snakemake_provenance | |
| path: | | |
| benchmarks/linear-elastic-plate-with-hole/*.zip | |
| - name: Archive fenics nextflow data | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: fenics-nextflow-output | |
| path: | | |
| benchmarks/linear-elastic-plate-with-hole/FEniCS_nextflow/work/** | |
| !benchmarks/linear-elastic-plate-with-hole/FEniCS_nextflow/work/conda/** | |
| - name: Archive fenics nextflow provenance | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: fenics-nextflow-provenance | |
| path: | | |
| benchmarks/linear-elastic-plate-with-hole/FEniCS_nextflow/provenance.json |