added LNP figures and notebook #18
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| name: Build and Deploy | |
| on: | |
| push: | |
| branches: | |
| - main | |
| permissions: | |
| contents: write | |
| jobs: | |
| build-and-deploy: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: '4.4' | |
| - name: Install system dependencies for R packages | |
| run: sudo apt-get install -y libarchive-dev libcurl4-openssl-dev libssl-dev libxml2-dev | |
| - name: Cache R packages | |
| uses: actions/cache@v4 | |
| with: | |
| path: ${{ env.R_LIBS_USER }} | |
| key: r-pkgs-shinylive-${{ hashFiles('shiny_apps/gwat_portfolio/app.R') }} | |
| restore-keys: r-pkgs-shinylive- | |
| - name: Install R packages | |
| run: | | |
| Rscript -e "install.packages(c('shinylive', 'shiny', 'plotly', 'dplyr', 'stringr'), | |
| repos = 'https://cloud.r-project.org', Ncpus = 2)" | |
| - name: Export Shiny app with shinylive | |
| run: | | |
| mkdir -p ai_studio/public/shiny/gwat_rnaseq | |
| Rscript -e "shinylive::export('shiny_apps/gwat_portfolio', 'ai_studio/public/shiny/gwat_rnaseq')" | |
| echo "=== shinylive output ===" | |
| ls -lh ai_studio/public/shiny/gwat_rnaseq/ | |
| - name: Setup Node | |
| uses: actions/setup-node@v4 | |
| with: | |
| node-version: '20' | |
| - name: Install dependencies | |
| working-directory: ai_studio | |
| run: npm install | |
| - name: Stage public assets | |
| run: | | |
| mkdir -p ai_studio/public/assets/images | |
| cp assets/images/headshot.jpg ai_studio/public/assets/images/headshot.jpg | |
| cp Dearborn_CV_March_2026.pdf ai_studio/public/Dearborn_CV_March_2026.pdf | |
| - name: Stage LNP analysis assets | |
| run: | | |
| mkdir -p ai_studio/public/assets/images/lnp | |
| cp assets/images/lnp/*.png ai_studio/public/assets/images/lnp/ | |
| mkdir -p ai_studio/public/notebooks | |
| cp assets/notebooks/lnp_10x.html ai_studio/public/notebooks/lnp_10x.html | |
| - name: Build | |
| working-directory: ai_studio | |
| run: npm run build | |
| - name: Deploy to gh-pages | |
| uses: peaceiris/actions-gh-pages@v4 | |
| with: | |
| github_token: ${{ secrets.GITHUB_TOKEN }} | |
| publish_dir: ai_studio/dist |