Addded jekyll theme

.github/workflows/pkgdown.yaml

@@ -16,7 +16,6 @@ name: pkgdown
 jobs:
   pkgdown:
     runs-on: ubuntu-latest
-    # Only restrict concurrency for non-PR jobs
     concurrency:
       group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
     env:
@@ -33,16 +32,24 @@ jobs:
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
           extra-packages: any::pkgdown, local::.
-          needs: website
 
-      - name: Build site
-        run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
-        shell: Rscript {0}
+      # Install Ruby and Jekyll
+      - name: Setup Ruby
+        uses: ruby/setup-ruby@v1
+        with:
+          ruby-version: '3.0'  # Set this according to your needs
+          bundler-cache: true
+
+      - name: Install Jekyll
+        run: bundle install
+
+      - name: Build Jekyll Site
+        run: bundle exec jekyll build
 
-      - name: Deploy to GitHub pages 🚀
+      - name: Deploy to GitHub Pages 🚀
         if: github.event_name != 'pull_request'
         uses: JamesIves/github-pages-deploy-action@v4.4.1
         with:
           clean: false
           branch: gh-pages
-          folder: docs
+          folder: _site  # Jekyll outputs to the _site folder by default

_config.yml

@@ -0,0 +1,3 @@
+remote_theme: pages-themes/minimal@v0.2.0
+plugins:
+- jekyll-remote-theme # add this line to the plugins list if you already have one

vignettes/model_define.Rmd

@@ -214,8 +214,10 @@ Before running the whoel model it is good to check the data and the priors. This
 
 p1 <- plotSero(seroModel)
 p2 <- plotPriorPredictive(seroModel)
+p3 <- plotPriorInfection(seroModel)
 
 p1 / p2
+p3
 
 ```