Update submission.md #36
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| name: Docker Image CI | |
| on: | |
| push: | |
| branches: [ "main","multi_phase_tasks" ] | |
| pull_request: | |
| branches: [ "main","multi_phase_tasks" ] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| # r-version: ['3.6.3', '4.1.1'] | |
| r-version: ['4.1.1'] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up R ${{ matrix.r-version }} | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.r-version }} | |
| - name: Check Data Generation | |
| run: | | |
| chmod +x generate_data.sh | |
| sh generate_data.sh | |
| # mkdir input_data | |
| # mkdir ground_truth | |
| # mkdir data | |
| # # ls -rthl * | |
| # Rscript generate_fake_data.R | |
| # # ls -rthl * | |
| # cp data/mixes_data.rds starting_kit/mixes_data.rds | |
| # cp data/reference_data.rds starting_kit/reference_data.rds | |
| # cp data/mixes_data.rds input_data/mixes_data.rds | |
| # cp data/reference_data.rds input_data/reference_data.rds | |
| # cp data/ground_truth.rds ground_truth/ground_truth.rds | |
| # # ls -rthl * | |
| # - name: Build the Docker image | |
| # run: | | |
| # cd docker/codabench_hadaca3_light | |
| # docker build -t hombergn/hadaca3_light . | |
| # cd - | |
| - name: Create submission program | |
| run: | | |
| cd starting_kit/ | |
| Rscript submission_script.R | |
| cd .. | |
| - name: Prepare files by creating folder etc... | |
| shell: bash | |
| run: | | |
| chmod +x prepare2score_locally.sh | |
| sh prepare2score_locally.sh | |
| ls test_output/* | |
| - name: Running ingestion Program | |
| run: | | |
| # ls -rthl * | |
| docker run --rm -v $PWD/ingestion_program:/app/program -v $PWD/test_output/res:/app/output -v $PWD/starting_kit/submissions:/app/ingested_program -w /app/program -v $PWD/input_data/:/app/input_data/ hombergn/hadaca3_light Rscript /app/program/ingestion.R /app/program /app/input_data /app/output /app/ingested_program | |
| # ls -rthl test_output/* | |
| - name: Running Scoring Program | |
| run: | | |
| docker run --rm -v $PWD/scoring_program:/app/program -v $PWD/test_output:/app/output -w /app/program -v $PWD/test_output:/app/input hombergn/hadaca3_light Rscript /app/program/scoring.R /app/input /app/output /app/program | |
| # ls -rthl test_output/* | |
| # - name: Install dependencies | |
| # shell: Rscript {0} | |
| # run: | | |
| # install.packages(c("remotes", "rcmdcheck")) | |
| # remotes::install_deps(dependencies = TRUE) | |
| # - name: Check Rsript | |
| # shell: Rscript {0} | |
| # run: rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "error")ll |