Inference with metrics and timing evaluation #36
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| name: Inference with metrics and timing evaluation | |
| on: | |
| push: | |
| paths: | |
| - "**/**/*.onnx" | |
| workflow_dispatch: | |
| permissions: | |
| contents: write | |
| pull-requests: write | |
| jobs: | |
| select-runner: | |
| runs-on: ubuntu-22.04 | |
| outputs: | |
| runner: ${{ steps.select_runner.outputs.runner }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Select runner | |
| id: select_runner | |
| run: | | |
| if [ "${{ github.repository }}" = "NeuroDesk/cvpr-sam-on-laptop-2024" ]; then | |
| echo "runner=self-hosted" >> $GITHUB_OUTPUT | |
| else | |
| echo "runner=ubuntu-22.04" >> $GITHUB_OUTPUT | |
| fi | |
| list_models: | |
| needs: [select-runner] | |
| runs-on: ${{ needs.select-runner.outputs.runner }} | |
| outputs: | |
| model_list: ${{ steps.set_model_list.outputs.model_list }} | |
| all_models: ${{ steps.set_model_list.outputs.all_models }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.10" | |
| - name: Set up environment and data from osf | |
| id: set_model_list | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install osfclient | |
| model_dir=$( osf --project u8tny list) | |
| all_models=$( echo "$model_dir" | awk -F '/' '/osfstorage\/checkpoints/ {print $3}' | sort -u | tr '\n' ' ') | |
| echo "all_models=${all_models}" | |
| model_list='[' | |
| for MODEL in $(echo "${all_models}"); do | |
| echo "MODEL=${MODEL}" | |
| model_list+="\"${MODEL}\"," | |
| done | |
| model_list=$(sed '$s/,$//' <<< $model_list) | |
| model_list+=']' | |
| echo "model_list=${model_list}" | |
| echo "model_list=${model_list}" >> $GITHUB_OUTPUT | |
| echo "all_models=${all_models}" >> $GITHUB_OUTPUT | |
| infer_new_model: | |
| needs: [select-runner, list_models] | |
| if: ${{ needs.list_models.outputs.model_list != '[]' }} | |
| runs-on: ${{ needs.select-runner.outputs.runner }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| models: ${{ fromJson(needs.list_models.outputs.model_list) }} | |
| steps: | |
| - name: Cleanup | |
| shell: bash | |
| run: | | |
| pwd | |
| ls -l | |
| echo ${{ secrets.USERPWD }} | sudo -S rm -rf test_demo | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.10" | |
| - name: Set up environment and data from osf for ${{ matrix.models }} | |
| id: set_model_list | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install osfclient numpy nibabel pandas tqdm matplotlib scipy | |
| osf --project u8tny fetch test_demo.tar.xz | |
| osf --project u8tny fetch checkpoints/${{ matrix.models }}/${{ matrix.models }}_encoder.onnx | |
| osf --project u8tny fetch checkpoints/${{ matrix.models }}/${{ matrix.models }}_decoder.onnx | |
| tar -xvf test_demo.tar.xz | |
| rm test_demo.tar.xz | |
| mv ${{ matrix.models }}_encoder.onnx ${{ matrix.models }}_decoder.onnx work_dir/ | |
| mv imgs gts test_demo | |
| - name: Run inference on ${{ matrix.models }} | |
| shell: bash | |
| run: | | |
| mkdir segs && chmod -R 777 ./* | |
| export DOCKER_IMAGE_NAME=hawken50 | |
| echo ${{ secrets.USERPWD }} | sudo -S docker build -f Dockerfile -t "$DOCKER_IMAGE_NAME" . | |
| echo ${{ secrets.USERPWD }} | sudo -S docker container run -m 8G --name "$DOCKER_IMAGE_NAME" --rm "$DOCKER_IMAGE_NAME":latest /bin/bash -c "ls" | |
| echo ${{ secrets.USERPWD }} | sudo -S docker container run -m 8G --name "$DOCKER_IMAGE_NAME" --rm "$DOCKER_IMAGE_NAME":latest /bin/bash -c "ls work_dir" | |
| echo ${{ secrets.USERPWD }} | ./evaluate.sh . | |
| - name: Display accuracy, efficiency, and running time | |
| run: | | |
| printf "Metrics:\n" >> $GITHUB_STEP_SUMMARY | |
| cat ./metrics.csv >> $GITHUB_STEP_SUMMARY | |
| printf "\n\n" >> $GITHUB_STEP_SUMMARY | |
| printf "Running time:\n" >> $GITHUB_STEP_SUMMARY | |
| cat ./running_time.csv >> $GITHUB_STEP_SUMMARY | |
| mkdir ${{ matrix.models }}_results | |
| mv metrics.csv running_time.csv ${{ matrix.models }}_results/ | |
| - name: Archive metrics and running time | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: ${{ matrix.models }}_results | |
| path: | | |
| ${{ matrix.models }}_results | |
| plot_results: | |
| needs: [list_models, infer_new_model] | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.10" | |
| - name: Set up environment and data from osf | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install numpy tqdm matplotlib scipy pandas | |
| - name: Download result artifacts | |
| uses: actions/download-artifact@v4 | |
| - name: Plot results | |
| run: | | |
| python plot_results.py -models ${{ needs.list_models.outputs.all_models }} | |
| IMAGE_BASE64="data:image/png;base64,$(base64 -w 0 pareto_front.png)" | |
| echo $IMAGE_BASE64 | |
| echo "<img src=\"$IMAGE_BASE64\">" | |
| echo "<img src=\"$IMAGE_BASE64\">" >> "$GITHUB_STEP_SUMMARY" |