diff --git a/.github/workflows/check-bioc.yml b/.github/workflows/check-bioc.yml index 314dc4a..1abda6c 100644 --- a/.github/workflows/check-bioc.yml +++ b/.github/workflows/check-bioc.yml @@ -259,28 +259,12 @@ jobs: if: github.ref == 'refs/heads/master' && env.run_pkgdown == 'true' && runner.os == 'Linux' run: R CMD INSTALL . - ## - name: Build pkgdown site - ## if: github.ref == 'refs/heads/master' && env.run_pkgdown == 'true' && runner.os == 'Linux' - ## run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE) - ## shell: Rscript {0} - ## ## Note that you need to run pkgdown::deploy_to_branch(new_process = FALSE) - ## ## at least one locally before this will work. This creates the gh-pages - ## ## branch (erasing anything you haven't version controlled!) and - ## ## makes the git history recognizable by pkgdown. - - name: Install deploy dependencies if: github.ref == 'refs/heads/master' && env.run_pkgdown == 'true' && runner.os == 'Linux' run: | apt-get update && apt-get -y install rsync - ## - name: Deploy pkgdown site to GitHub pages 🚀 - ## if: github.ref == 'refs/heads/master' && env.run_pkgdown == 'true' && runner.os == 'Linux' - ## uses: JamesIves/github-pages-deploy-action@releases/v4 - ## with: - ## clean: false - ## branch: gh-pages - ## folder: docs - - name: Deploy package + - name: Deploy pkgdown site to GitHub pages #if: github.ref == 'refs/heads/master' && env.run_pkgdown == 'true' && runner.os == 'Linux' if: env.run_pkgdown == 'true' && runner.os == 'Linux' run: | @@ -294,60 +278,9 @@ jobs: ## branch (erasing anything you haven't version controlled!) and ## makes the git history recognizable by pkgdown. - - - name: Upload check results if: failure() uses: actions/upload-artifact@master with: name: ${{ runner.os }}-biocversion-devel-r-devel-results - path: check - - - ## ## Code adapted from - ## ## https://github.com/waldronlab/cBioPortalData/blob/e0440a4445f0cc731e426363a76faa22ee5e0f9d/.github/workflows/devel_check_dock.yml#L65-L92 - ## docker-build-and-push: - ## runs-on: ubuntu-latest - ## needs: build-check - ## steps: - ## - name: Checkout Repository - ## if: "!contains(github.event.head_commit.message, '/nodocker') && env.run_docker == 'true' && github.ref == 'refs/heads/master'" - ## uses: actions/checkout@v3 - - ## - name: Register repo name - ## if: "!contains(github.event.head_commit.message, '/nodocker') && env.run_docker == 'true' && github.ref == 'refs/heads/master'" - ## id: reg_repo_name - ## run: | - ## echo CONT_IMG_NAME=$(echo ${{ github.event.repository.name }} | tr '[:upper:]' '[:lower:]') >> $GITHUB_ENV - - ## - name: Set up QEMU - ## if: "!contains(github.event.head_commit.message, '/nodocker') && env.run_docker == 'true' && github.ref == 'refs/heads/master'" - ## uses: docker/setup-qemu-action@v2 - - ## - name: Set up Docker Buildx - ## if: "!contains(github.event.head_commit.message, '/nodocker') && env.run_docker == 'true' && github.ref == 'refs/heads/master'" - ## uses: docker/setup-buildx-action@v2 - - ## - name: Login to Docker Hub - ## if: "!contains(github.event.head_commit.message, '/nodocker') && env.run_docker == 'true' && github.ref == 'refs/heads/master'" - ## uses: docker/login-action@v2 - ## with: - ## username: ${{ secrets.DOCKERHUB_USERNAME }} - ## password: ${{ secrets.DOCKERHUB_TOKEN }} - ## ## Note that DOCKERHUB_TOKEN is really a token for your dockerhub - ## ## account, not your actual dockerhub account password. You can get it - ## ## from https://hub.docker.com/settings/security. - ## ## Check https://github.com/docker/build-push-action/tree/v4.0.0 - ## ## for more details. - ## ## Alternatively, try checking - ## ## https://seandavi.github.io/BuildABiocWorkshop/articles/HOWTO_BUILD_WORKSHOP.html. - - ## - name: Build and Push Docker - ## if: "!contains(github.event.head_commit.message, '/nodocker') && env.run_docker == 'true' && github.ref == 'refs/heads/master' && success()" - ## uses: docker/build-push-action@v4 - ## with: - ## context: . - ## push: true - ## tags: > - ## ${{ secrets.DOCKERHUB_USERNAME }}/${{ env.CONT_IMG_NAME }}:latest, - ## ${{ secrets.DOCKERHUB_USERNAME }}/${{ env.CONT_IMG_NAME }}:devel + path: check \ No newline at end of file diff --git a/DESCRIPTION b/DESCRIPTION index 2fa6393..b39709b 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -39,7 +39,6 @@ Imports: tibble License: Artistic-2.0 Encoding: UTF-8 -RoxygenNote: 7.3.1 Suggests: knitr, rmarkdown, @@ -77,3 +76,6 @@ biocViews: Proteome, StemCell, Tissue +BugReports: https://github.com/UCLouvain-CBIO/depmap/issues +URL: https://UCLouvain-CBIO.github.io/depmap +RoxygenNote: 7.3.1 diff --git a/_pkgdown.yml b/_pkgdown.yml index 88045a0..ec0a740 100644 --- a/_pkgdown.yml +++ b/_pkgdown.yml @@ -1,3 +1,2 @@ -url: https://uclouvain-cbio.github.io/depmap template: - bootstrap: 5 \ No newline at end of file + bootstrap: 5