Prepare 0 7 5 release #444
Workflow file for this run
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| on: | |
| push: | |
| branches: [ main ] | |
| pull_request: | |
| types: | |
| - opened | |
| - reopened | |
| - synchronize | |
| - closed | |
| # to be able to trigger a manual build | |
| workflow_dispatch: | |
| name: Render project | |
| jobs: | |
| build-deploy: | |
| runs-on: ubuntu-latest | |
| env: | |
| RENV_PATHS_ROOT: ~/.local/share/renv | |
| steps: | |
| # need to maximise build space for docker images | |
| - name: Maximize build disk space | |
| uses: easimon/maximize-build-space@v6 | |
| with: | |
| root-reserve-mb: 4000 | |
| - uses: actions/checkout@v3 | |
| - name: Replace Docker with podman | |
| run: | | |
| echo 'shopt -s expand_aliases' >> ~/.bash_profile | |
| echo 'alias docker=podman' >> ~/.bash_profile | |
| - name: Check podman | |
| shell: bash -l {0} | |
| run: | | |
| docker -v | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: "4.2" | |
| use-public-rspm: true | |
| # - uses: actions/setup-python@v4 | |
| # with: | |
| # python-version: "3.10" | |
| # - uses: nf-core/[email protected] | |
| - name: Install Nextflow | |
| env: | |
| CAPSULE_LOG: none | |
| NXF_VER: "22.10.6" | |
| run: | | |
| mkdir $RUNNER_TEMP/nextflow | |
| cd $RUNNER_TEMP/nextflow | |
| wget -qO- get.nextflow.io | bash | |
| sudo ln -s $RUNNER_TEMP/nextflow/nextflow /usr/local/bin/nextflow | |
| nextflow -version | |
| - uses: viash-io/viash-actions/setup@v3 | |
| - name: Install dependencies via renv restore | |
| run: | | |
| Rscript -e 'renv::restore()' | |
| - name: Install Quarto | |
| uses: quarto-dev/quarto-actions/setup@v2 | |
| with: | |
| tinytex: true | |
| - name: Render with Quarto | |
| shell: bash -l {0} | |
| run: | | |
| # source renv/python/virtualenvs/renv-python-3.10/bin/activate | |
| # environment variable that enables docker image pruning | |
| # between different pages to save on disk space | |
| export PRUNE_IMAGES=true | |
| quarto render | |
| - name: Deploy 🚀 | |
| if: github.event_name != 'pull_request' | |
| uses: JamesIves/github-pages-deploy-action@v4 | |
| with: | |
| folder: _site | |
| branch: gh-pages | |
| force: false | |
| clean-exclude: pr-preview/ | |
| - name: Deploy preview | |
| if: github.event_name == 'pull_request' | |
| uses: rossjrw/pr-preview-action@v1 | |
| with: | |
| source-dir: _site | |
| preview-branch: gh-pages | |
| umbrella-dir: pr-preview | |
| action: auto |