attempt pull request CU retrospective forecasts #125
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| name: Hub Submission Validation (R) | |
| on: | |
| workflow_dispatch: | |
| pull_request: | |
| branches: main | |
| paths: | |
| - 'model-output/**' | |
| - 'model-metadata/*' | |
| jobs: | |
| validate-submission: | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| fetch-depth: 2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| install-r: false | |
| use-public-rspm: true | |
| - name: Install system dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install libcurl4-openssl-dev libv8-dev | |
| - name: Cache R packages | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ env.R_LIBS_USER }} | |
| key: ${{ runner.os }}-r-${{ hashFiles('DESCRIPTION') }} | |
| restore-keys: ${{ runner.os }}-r- | |
| - name: Install hubUtils from specific branch | |
| run: | | |
| Rscript -e 'install.packages("remotes")' | |
| Rscript -e 'remotes::install_github("kjsato/hubUtils@enhancement/v3-utils", upgrade = "never")' | |
| - name: Install hubData from specific branch | |
| run: | | |
| Rscript -e 'remotes::install_github("kjsato/hubData@feature/handle-samples", upgrade = "never")' | |
| - name: Install hubAdmin from specific branch | |
| run: | | |
| Rscript -e 'remotes::install_github("kjsato/hubAdmin@feature/sample-support", upgrade = "never")' | |
| - name: Install HubValidations | |
| run: | | |
| #install.packages("remotes") | |
| #remotes::install_github("Infectious-Disease-Modeling-Hubs/hubValidations", upgrade = "always") | |
| Rscript -e 'remotes::install_github("kjsato/hubValidations@patch4conversion_origin_date", upgrade = "never")' | |
| shell: Rscript {0} | |
| - name: Run validations | |
| env: | |
| PR_NUMBER: ${{ github.event.number }} | |
| run: | | |
| library("hubValidations") | |
| v <- hubValidations::validate_pr( | |
| gh_repo = Sys.getenv("GITHUB_REPOSITORY"), | |
| pr_number = Sys.getenv("PR_NUMBER"), | |
| skip_submit_window_check = FALSE | |
| ) | |
| hubValidations::check_for_errors(v) | |
| shell: Rscript {0} | |