quick fix to include 'models' #125
Workflow file for this run
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| name: Quick test | |
| on: | |
| push: | |
| branches-ignore: | |
| - 'main' | |
| - '**skip**' | |
| tags-ignore: | |
| - '**' | |
| paths: | |
| - '.github/workflows/quick.yml' | |
| - '.Rbuildignore' | |
| - 'data/**' | |
| - 'DESCRIPTION' | |
| - 'inst/tinytest/**' | |
| - 'man/**' | |
| - 'NAMESPACE' | |
| - 'R/**' | |
| - 'tests/**' | |
| - 'vignettes/**' | |
| workflow_dispatch: | |
| jobs: | |
| quick: | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Setup r2u | |
| run: sudo bash scripts/setup-r2u.sh | |
| - name: Install R packages | |
| run: sudo bash scripts/install-dependencies-r2u.sh | |
| - name: Build OmicNavigator | |
| run: R CMD build --no-manual --no-build-vignettes . | |
| - name: Install OmicNavigator | |
| run: R CMD INSTALL --no-docs --no-multiarch --no-staged-install OmicNavigator_*.tar.gz | |
| shell: sudo bash {0} | |
| - name: Session information | |
| run: | | |
| library("OmicNavigator") | |
| sessionInfo() | |
| shell: Rscript {0} | |
| - name: Test | |
| env: | |
| TT_AT_HOME: TRUE | |
| run: suppressMessages(tinytest::test_package("OmicNavigator", ncpu = 2)) | |
| shell: Rscript {0} | |
| - name: Run vignettes | |
| run: | | |
| vignettes <- Sys.glob("vignettes/*.Rnw") | |
| tangled <- sub("nw$", "", basename(vignettes)) | |
| for (i in seq_along(vignettes)) { | |
| utils::Stangle(vignettes[i]) | |
| source(tangled[i], local = new.env()) | |
| } | |
| shell: Rscript {0} | |
| deploy-dev: | |
| needs: quick | |
| if: ${{ github.ref == 'refs/heads/dev' && github.repository == 'abbvie-external/OmicNavigator' && github.event_name != 'pull_request' }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Deploy dev dispatch | |
| uses: peter-evans/repository-dispatch@v3 | |
| with: | |
| token: ${{ secrets.REPO_ACCESS_TOKEN }} | |
| repository: abbvie-internal/OmicNavigatorCD | |
| event-type: deploy-dev | |
| # https://docs.github.com/en/actions/reference/context-and-expression-syntax-for-github-actions#github-context | |
| client-payload: '{ | |
| "repository": "${{ github.repository }}", | |
| "ref": "${{ github.ref }}", | |
| "sha": "${{ github.sha }}", | |
| "workflow": "${{ github.workflow }}", | |
| "run_id": "${{ github.run_id }}", | |
| "run_number": "${{ github.run_number }}" | |
| }' |