Try seg and upload artefacts #3
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| name: Reconstruct and evaluate | ||
| on: | ||
| workflow_call: | ||
| inputs: | ||
| algo_list: | ||
| required: true | ||
| type: string | ||
| runner: | ||
| required: true | ||
| type: string | ||
| jobs: | ||
| # Defining matrix for OS and Python | ||
| recon_and_evaluate: | ||
| name: Matrix Test | ||
| if: ${{ inputs.algo_list != '[]' }} | ||
| runs-on: ${{ fromJSON(inputs.runner) }} | ||
| # Default shell for ALL subsequent steps. | ||
| defaults: | ||
| run: | ||
| shell: bash -l {0} | ||
| # Defining matrix for OS and Python | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| algo: ${{ fromJSON(inputs.algo_list) }} | ||
| steps: | ||
| - uses: actions/checkout@v3 | ||
| - name: Get modified algorithms | ||
| id: getfile | ||
| run: | | ||
| shell: bash | ||
| # Step 2: Install environment. | ||
| - name: Install Conda Env All OS | ||
| uses: conda-incubator/setup-miniconda@v2 | ||
| with: | ||
| python-version: 3.9 | ||
| activate-environment: venv | ||
| auto-update-conda: true | ||
| environment-file: environment.yml | ||
| # Step 3: List conda info, conda packages | ||
| - name: Conda info and list | ||
| # List | ||
| run: | | ||
| conda info | ||
| conda list | ||
| - name: Reconstruct and evaluate | ||
| run: | | ||
| #sudo apt-get update | ||
| #sudo apt-get install python3.10 python3.10-venv python-is-python3 -y | ||
| #pip install osfclient argparse numpy scikit-learn scikit-image scipy | ||
| export PATH=$PATH:/home/runnerx/.local/bin | ||
| export PIPELINE_NAME="$(basename "${{ matrix.algo }}")" | ||
| bash run.sh algos/${PIPELINE_NAME} | ||
| - name: Reconstruct and evaluate | ||
| run: | | ||
| #sudo apt-get update | ||
| #sudo apt-get install python3.10 python3.10-venv python-is-python3 -y | ||
| #pip install osfclient argparse numpy scikit-learn scikit-image scipy | ||
| export PATH=$PATH:/home/runnerx/.local/bin | ||
| export PIPELINE_NAME="$(basename "${{ matrix.algo }}")" | ||
| bash run.sh algos/${PIPELINE_NAME} | ||
| - name: Archive production artifacts | ||
| uses: actions/upload-artifact@v4 | ||
| with: | ||
| name: Segmentation files | ||
| path: | | ||
| output/${PIPELINE_NAME}/output.tar.gz | ||
