SRBench #93
Workflow file for this run
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| name: SRBench | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| repository: | |
| required: true | |
| type: choice | |
| options: | |
| - https://github.com/janoPig/HROCH.git | |
| commit: | |
| required: true | |
| type: string | |
| regressor: | |
| required: true | |
| type: choice | |
| options: | |
| - HROCH_1s | |
| - HROCH_10s | |
| - HROCH_1m | |
| - HROCH_5m | |
| env: | |
| CACHE_NUMBER: 0 | |
| defaults: | |
| run: | |
| shell: bash | |
| working-directory: /home/runner/work/ | |
| jobs: | |
| cache_env: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cache conda | |
| uses: actions/cache@v2 | |
| with: | |
| path: /usr/share/miniconda/envs/srbench | |
| key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: cache | |
| - name: Cache srbench | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/srbench | |
| key: ${{ runner.os }}-srbench-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: srbench | |
| - name: Cache pmlb | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/pmlb | |
| key: ${{ runner.os }}-pmlb-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: pmlb | |
| - name: Install SRBench | |
| env: | |
| REPO: ${{ github.event.inputs.repository }}@${{ github.event.inputs.commit }} | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| run: | | |
| echo "Install SRBench" | |
| pwd | |
| # clone pmlb | |
| #git clone https://github.com/janoPig/pmlb.git | |
| #cd pmlb | |
| #git lfs pull | |
| #cd .. | |
| wget https://github.com/janoPig/pmlb/archive/refs/heads/master.zip | |
| unzip master.zip | |
| mv pmlb-master pmlb | |
| # clone srbench | |
| mkdir srbench | |
| cd srbench | |
| git clone --branch git_workflow --depth 1 https://github.com/janoPig/srbench.git | |
| cd srbench | |
| # current branch | |
| line_old='git+https://github.com/BRANCH_PLACEHOLDER' | |
| line_new=$(echo "git+$REPO") | |
| sed -i "s%$line_old%$line_new%g" environment.yml | |
| # install enviroment | |
| # source /usr/share/miniconda/bin/activate | |
| conda env create -f environment.yml | |
| bbox_matrix: | |
| needs: cache_env | |
| strategy: | |
| matrix: | |
| seed: [0, 1, 2, 3, 4, 5, 6, 7 , 8, 9] | |
| env: | |
| SEED: ${{ matrix.seed }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cache conda | |
| uses: actions/cache@v2 | |
| with: | |
| path: /usr/share/miniconda/envs/srbench | |
| key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: cache | |
| - name: Cache srbench | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/srbench | |
| key: ${{ runner.os }}-srbench-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: srbench | |
| - name: Cache pmlb | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/pmlb | |
| key: ${{ runner.os }}-pmlb-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: pmlb | |
| - name: BBox experiment | |
| run: | | |
| echo "BBox experiment" | |
| pwd | |
| mkdir -p output/output | |
| # install enviroment | |
| source /usr/share/miniconda/bin/activate | |
| conda activate srbench | |
| cd srbench/srbench/experiment | |
| # black-box experiment | |
| python analyze.py ../../../pmlb/datasets -n_trials 1 -starting_seed $SEED -ml ${{ github.event.inputs.regressor }} -results ../results_blackbox -skip_tuning --local -n_jobs 2 -job_limit 100000 | |
| mv ../results_blackbox ../../../output/output/ | |
| - name: Archive production artifacts | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: bbox_experiment | |
| path: | | |
| /home/runner/work/output | |
| bbox_postprocessing: | |
| needs: bbox_matrix | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cache conda | |
| uses: actions/cache@v2 | |
| with: | |
| path: /usr/share/miniconda/envs/srbench | |
| key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: cache | |
| - name: Cache srbench | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/srbench | |
| key: ${{ runner.os }}-srbench-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: srbench | |
| - name: Cache pmlb | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/pmlb | |
| key: ${{ runner.os }}-pmlb-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: pmlb | |
| - name: Download result | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: bbox_experiment | |
| - name: BBox postprocess | |
| run: | | |
| echo "BBox postprocess" | |
| pwd | |
| ls | |
| mkdir -p output2/output | |
| # install enviroment | |
| source /usr/share/miniconda/bin/activate | |
| conda activate srbench | |
| cd srbench/srbench | |
| mv $GITHUB_WORKSPACE/output/results_blackbox . | |
| cd postprocessing | |
| python collate_blackbox_results.py ../results_blackbox | |
| mv ../results/black-box_results.feather ../../../output2/output/ | |
| - name: Archive production artifacts | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: bbox_result | |
| path: | | |
| /home/runner/work/output2 | |
| gt_matrix: | |
| needs: cache_env | |
| strategy: | |
| matrix: | |
| seed: [0, 1, 2, 3, 4, 5, 6, 7 , 8, 9] | |
| noise: [0, 0.001, 0.01, 0.1] | |
| env: | |
| SEED: ${{ matrix.seed }} | |
| TN: ${{ matrix.noise }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cache conda | |
| uses: actions/cache@v2 | |
| with: | |
| path: /usr/share/miniconda/envs/srbench | |
| key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: cache | |
| - name: Cache srbench | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/srbench | |
| key: ${{ runner.os }}-srbench-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: srbench | |
| - name: Cache pmlb | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/pmlb | |
| key: ${{ runner.os }}-pmlb-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: pmlb | |
| - name: GT experiment | |
| run: | | |
| echo "GT experiment" | |
| pwd | |
| mkdir -p output/output | |
| # install enviroment | |
| source /usr/share/miniconda/bin/activate | |
| conda activate srbench | |
| cd srbench/srbench/experiment | |
| # submit the ground-truth dataset experiment. | |
| for data in "../../../pmlb/datasets/strogatz_" "../../../pmlb/datasets/feynman_" ; do # feynman and strogatz datasets | |
| python analyze.py \ | |
| $data"*" \ | |
| -results ../results_sym_data \ | |
| -n_trials 1 \ | |
| -starting_seed $SEED \ | |
| -ml ${{ github.event.inputs.regressor }} \ | |
| --local \ | |
| -target_noise $TN \ | |
| -sym_data \ | |
| -job_limit 100000 \ | |
| -skip_tuning \ | |
| -n_jobs 2 | |
| if [ $? -gt 0 ] ; then | |
| break | |
| fi | |
| done | |
| mv ../results_sym_data ../../../output/output/ | |
| - name: Archive production artifacts | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: gt_experiment_${{ matrix.seed }} | |
| path: | | |
| /home/runner/work/output | |
| gt_sympy: | |
| needs: gt_matrix | |
| strategy: | |
| matrix: | |
| seed: [0, 1, 2, 3, 4, 5, 6, 7 , 8, 9] | |
| env: | |
| SEED: ${{ matrix.seed }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cache conda | |
| uses: actions/cache@v2 | |
| with: | |
| path: /usr/share/miniconda/envs/srbench | |
| key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: cache | |
| - name: Cache srbench | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/srbench | |
| key: ${{ runner.os }}-srbench-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: srbench | |
| - name: Cache pmlb | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/pmlb | |
| key: ${{ runner.os }}-pmlb-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: pmlb | |
| - name: Download result | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: gt_experiment_${{ matrix.seed }} | |
| - name: GT sympy | |
| run: | | |
| echo "GT sympy" | |
| pwd | |
| ls | |
| mkdir -p output2/output | |
| cd srbench/srbench | |
| mv $GITHUB_WORKSPACE/output/results_sym_data . | |
| # install enviroment | |
| source /usr/share/miniconda/bin/activate | |
| conda activate srbench | |
| cd experiment | |
| # assess the ground-truth models that were produced using sympy | |
| for data in "../../../pmlb/datasets/strogatz_" "../../../pmlb/datasets/feynman_" ; do # feynman and strogatz datasets | |
| for TN in 0 0.001 0.01 0.1; do # noise levels | |
| python analyze.py \ | |
| -script assess_symbolic_model \ | |
| $data"*" \ | |
| -results ../results_sym_data \ | |
| -target_noise $TN \ | |
| -ml ${{ github.event.inputs.regressor }} \ | |
| --local \ | |
| -sym_data \ | |
| -n_trials 1 \ | |
| -starting_seed $SEED \ | |
| -job_limit 100000 \ | |
| -n_jobs 2 | |
| if [ $? -gt 0 ] ; then | |
| break | |
| fi | |
| done | |
| done | |
| mv ../results_sym_data ../../../output2/output/ | |
| - name: Archive production artifacts | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: gt_sympy | |
| path: | | |
| /home/runner/work/output2 | |
| gt_postprocessing: | |
| needs: gt_sympy | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cache conda | |
| uses: actions/cache@v2 | |
| with: | |
| path: /usr/share/miniconda/envs/srbench | |
| key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: cache | |
| - name: Cache srbench | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/srbench | |
| key: ${{ runner.os }}-srbench-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: srbench | |
| - name: Cache pmlb | |
| uses: actions/cache@v2 | |
| with: | |
| path: /home/runner/work/pmlb | |
| key: ${{ runner.os }}-pmlb-${{ env.CACHE_NUMBER }}-${{ github.sha }} | |
| id: pmlb | |
| - name: Download result | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: gt_sympy | |
| - name: GT postprocess | |
| run: | | |
| echo "GT postprocess" | |
| pwd | |
| ls | |
| mkdir -p output2/output | |
| cd srbench/srbench | |
| mv $GITHUB_WORKSPACE/output/results_sym_data . | |
| # install enviroment | |
| source /usr/share/miniconda/bin/activate | |
| conda activate srbench | |
| cd postprocessing | |
| python collate_groundtruth_results.py ../results_sym_data | |
| mv ../results/ground-truth_results.feather ../../../output2/output/ | |
| - name: Archive production artifacts | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: gt_result | |
| path: | | |
| /home/runner/work/output2 |