Bump to 1.13.22 and pin version 1.9.4 of the web app. #57
Workflow file for this run
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| # https://github.com/actions/create-release | |
| # https://github.com/actions/upload-release-asset | |
| name: Create a release from a tag | |
| on: | |
| push: | |
| tags: | |
| - 'v*' | |
| jobs: | |
| release: | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - name: Extract package version from tag reference | |
| run: echo "version=${GITHUB_REF#refs/tags/v}" >> $GITHUB_ENV | |
| - uses: actions/checkout@v4 | |
| - name: Setup r2u | |
| run: sudo bash scripts/setup-r2u.sh | |
| - name: Install R packages | |
| run: sudo bash scripts/install-dependencies-r2u.sh | |
| - name: Create diagrams for vignettes | |
| run: make diagrams | |
| - name: Install TinyTeX | |
| uses: r-lib/actions/setup-tinytex@v2 | |
| env: | |
| # install full prebuilt version | |
| TINYTEX_INSTALLER: TinyTeX | |
| - name: Download app | |
| run: | | |
| devtools::load_all() | |
| installApp() | |
| shell: Rscript {0} | |
| - name: Build | |
| run: R CMD build . | |
| - name: Install | |
| run: sudo R CMD INSTALL --no-multiarch --with-keep.source OmicNavigator_*.tar.gz | |
| shell: sudo bash {0} | |
| - name: Session information | |
| run: | | |
| library("OmicNavigator") | |
| sessionInfo() | |
| shell: Rscript {0} | |
| - name: Build User's Guide vignette | |
| run: | | |
| setwd("vignettes") | |
| utils::Sweave("OmicNavigatorUsersGuide.Rnw") | |
| tools::texi2pdf("OmicNavigatorUsersGuide.tex") | |
| file.copy("OmicNavigatorUsersGuide.pdf", "../OmicNavigatorUsersGuide_${{ env.version }}.pdf") | |
| shell: Rscript {0} | |
| - name: Build API vignette | |
| run: | | |
| setwd("vignettes") | |
| utils::Sweave("OmicNavigatorAPI.Rnw") | |
| tools::texi2pdf("OmicNavigatorAPI.tex") | |
| file.copy("OmicNavigatorAPI.pdf", "../OmicNavigatorAPI_${{ env.version }}.pdf") | |
| shell: Rscript {0} | |
| - name: Release notes | |
| run: | | |
| releaseNotes <- utils::news(query = Version=="${{ env.version }}", package = "OmicNavigator") | |
| writeLines(releaseNotes[["HTML"]], con = "RELEASE-NOTES.html") | |
| shell: Rscript {0} | |
| - name: Create Release | |
| id: create_release | |
| uses: actions/create-release@v1 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # This token is provided by Actions, you do not need to create your own token | |
| with: | |
| tag_name: ${{ github.ref }} | |
| release_name: OmicNavigator ${{ env.version }} | |
| body_path: RELEASE-NOTES.html | |
| draft: false | |
| prerelease: false | |
| - name: Upload package tarball as release asset | |
| id: upload-release-asset-tarball | |
| uses: actions/upload-release-asset@v1 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| upload_url: ${{ steps.create_release.outputs.upload_url }} # This pulls from the CREATE RELEASE step above, referencing it's ID to get its outputs object, which include a `upload_url`. See this blog post for more info: https://jasonet.co/posts/new-features-of-github-actions/#passing-data-to-future-steps | |
| asset_path: ./OmicNavigator_${{ env.version }}.tar.gz | |
| asset_name: OmicNavigator_${{ env.version }}.tar.gz | |
| asset_content_type: application/gzip | |
| - name: Upload User's Guide PDF as release asset | |
| id: upload-release-asset-users-guide | |
| uses: actions/upload-release-asset@v1 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| upload_url: ${{ steps.create_release.outputs.upload_url }} # This pulls from the CREATE RELEASE step above, referencing it's ID to get its outputs object, which include a `upload_url`. See this blog post for more info: https://jasonet.co/posts/new-features-of-github-actions/#passing-data-to-future-steps | |
| asset_path: ./OmicNavigatorUsersGuide_${{ env.version }}.pdf | |
| asset_name: OmicNavigatorUsersGuide_${{ env.version }}.pdf | |
| asset_content_type: application/pdf | |
| - name: Upload API PDF as release asset | |
| id: upload-release-asset-api | |
| uses: actions/upload-release-asset@v1 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| upload_url: ${{ steps.create_release.outputs.upload_url }} # This pulls from the CREATE RELEASE step above, referencing it's ID to get its outputs object, which include a `upload_url`. See this blog post for more info: https://jasonet.co/posts/new-features-of-github-actions/#passing-data-to-future-steps | |
| asset_path: ./OmicNavigatorAPI_${{ env.version }}.pdf | |
| asset_name: OmicNavigatorAPI_${{ env.version }}.pdf | |
| asset_content_type: application/pdf | |
| deploy-release: | |
| needs: release | |
| if: ${{ github.repository == 'abbvie-external/OmicNavigator' && github.event_name != 'pull_request' }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Deploy release dispatch | |
| uses: peter-evans/repository-dispatch@v3 | |
| with: | |
| token: ${{ secrets.REPO_ACCESS_TOKEN }} | |
| repository: abbvie-internal/OmicNavigatorCD | |
| event-type: deploy-release | |
| client-payload: '{ | |
| "repository": "${{ github.repository }}", | |
| "ref": "${{ github.ref }}", | |
| "sha": "${{ github.sha }}", | |
| "workflow": "${{ github.workflow }}", | |
| "run_id": "${{ github.run_id }}", | |
| "run_number": "${{ github.run_number }}" | |
| }' |