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Sarbani-RoySarbani-Roy
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postprocessing muted for docker-based workfow and local workflowfile added
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‎.github/workflows/docker_ci.yml‎

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name: Docker-based CI
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on:
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push:
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branches:
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- dumux_and_rotating_cylinder
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pull_request:
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branches:
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- dumux_and_rotating_cylinder
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workflow_dispatch:
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schedule:
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- cron: '3 16 * * *'
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jobs:
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# -----------------------------
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# Build Docker images (Linux only)
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# -----------------------------
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build-docker:
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- name: Build base image
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id: base
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run: |
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docker build -t ci-base -f dockerfiles/Dockerfile.base .
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- name: Build Docker images
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run: |
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docker build -t ci-mesh -f dockerfiles/Dockerfile.mesh .
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docker build -t ci-fenics -f dockerfiles/Dockerfile.fenics .
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docker build -t ci-kratos -f dockerfiles/Dockerfile.kratos .
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docker build -t ci-postprocessing -f dockerfiles/Dockerfile.postprocessing .
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- name: Generate config and mesh
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run: |
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docker run --rm -v ${{ github.workspace }}:/workspace -w /workspace/benchmarks/linear-elastic-plate-with-hole ci-mesh \
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python generate_config.py
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docker run --rm -v ${{ github.workspace }}:/workspace -w /workspace/benchmarks/linear-elastic-plate-with-hole ci-mesh \
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bash -c 'mkdir -p results/linear-elastic-plate-with-hole/mesh && \
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for f in parameters_*.json; do \
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python create_mesh.py --input_parameter_file "$f" \
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--output_mesh_file "results/linear-elastic-plate-with-hole/mesh/mesh_${f%.json}.msh"; \
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done'
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- name: Run Kratos simulations
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run: |
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docker run --rm -v ${{ github.workspace }}:/workspace -w /workspace/benchmarks/linear-elastic-plate-with-hole ci-kratos \
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bash -c 'mkdir -p results/linear-elastic-plate-with-hole/kratos && \
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for f in parameters_*.json; do \
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# Convert mesh to MDPA
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python kratos/msh_to_mdpa.py \
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--input_parameter_file "$f" \
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--input_mesh_file "results/linear-elastic-plate-with-hole/mesh/mesh_${f%.json}.msh" \
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--output_mdpa_file "results/linear-elastic-plate-with-hole/kratos/mesh_${f%.json}.mdpa"; \
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\
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# Create Kratos input and run simulation
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python kratos/create_kratos_input.py \
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--input_parameter_file "$f" \
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--input_mdpa_file "results/linear-elastic-plate-with-hole/kratos/mesh_${f%.json}.mdpa" \
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--input_kratos_input_template kratos/input_template.json \
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--input_material_template kratos/StructuralMaterials_template.json \
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--output_kratos_inputfile "results/linear-elastic-plate-with-hole/kratos/ProjectParameters_${f%.json}.json" \
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--output_kratos_materialfile "results/linear-elastic-plate-with-hole/kratos/MaterialParameters_${f%.json}.json"; \
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\
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python kratos/run_kratos_simulation.py \
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--input_parameter_file "$f" \
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--input_kratos_inputfile "results/linear-elastic-plate-with-hole/kratos/ProjectParameters_${f%.json}.json" \
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--input_kratos_materialfile "results/linear-elastic-plate-with-hole/kratos/MaterialParameters_${f%.json}.json"; \
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done'
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- name: Run fenics simulations
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run: |
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docker run --rm -v ${{ github.workspace }}:/workspace \
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-w /workspace/benchmarks/linear-elastic-plate-with-hole ci-fenics \
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bash -c 'mkdir -p results/linear-elastic-plate-with-hole/fenics && \
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for f in parameters_*.json; do \
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config_name="${f%.json}"; \
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python fenics/run_fenics_simulation.py \
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--input_parameter_file "$f" \
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--input_mesh_file "results/linear-elastic-plate-with-hole/mesh/mesh_${config_name}.msh" \
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--output_solution_file_zip "results/linear-elastic-plate-with-hole/fenics/solution_field_data_${config_name}.zip" \
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--output_metrics_file "results/linear-elastic-plate-with-hole/fenics/solution_metrics_${config_name}.json"; \
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done'
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# - name: Postprocessing (metadata + extraction + plot)
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# run: |
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# docker run --rm \
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# -v ${{ github.workspace }}:/workspace \
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# -w /workspace/benchmarks/linear-elastic-plate-with-hole \
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# ci-postprocessing \
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# bash -c '
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# echo "Generating metadata...";
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# python parameter_extractor.py ./results metadata4ing_provenance.zip;
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# echo "Extracting ZIP...";
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# mkdir -p ./metadata4ing_provenance;
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# unzip -o metadata4ing_provenance.zip -d ./metadata4ing_provenance;
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# echo "Plotting provenance...";
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# python plot_provenance.py ./metadata4ing_provenance
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# '
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- name: Upload Artifacts
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uses: actions/upload-artifact@v4
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with:
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name: workflow-results
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path:
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benchmarks/linear-elastic-plate-with-hole/results
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# benchmarks/linear-elastic-plate-with-hole/metadata4ing_provenance/
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# benchmarks/linear-elastic-plate-with-hole/metadata4ing_provenance.zip
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# benchmarks/linear-elastic-plate-with-hole/*.pdf

‎.github/workflows/run-benchmark-docker.yml‎

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‎.gitignore‎

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# Generated folders and outputs
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benchmarks/linear-elastic-plate-with-hole/metadata4ing_provenance/
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benchmarks/linear-elastic-plate-with-hole/snakemake_results/
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benchmarks/linear-elastic-plate-with-hole/results/
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# (Optional) ignore all ZIP and PDF files in benchmarks if they are always generated
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# benchmarks/**/*.zip

‎docker_setup.md‎

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