add quarto-generated website

.github/workflows/deploy-gh-pages.yml

@@ -0,0 +1,46 @@
+name: Deploy Quarto Site to GitHub Pages
+permissions: 
+    contents: write
+    pages: write
+
+on:
+  push:
+    branches:
+      - main
+
+jobs:
+  deploy:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v3
+
+      - name: Set up R
+        uses: r-lib/actions/setup-r@v2
+        with:
+          r-version: '4.3.1'  # Specify the R version you need
+
+      - name: Install required R packages
+        uses: r-lib/actions/setup-renv@v2
+        with:
+          cache-version: 1
+
+      - name: Set up Quarto
+        uses: quarto-dev/quarto-actions/setup@v2
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        with:
+          # To install LaTeX to build PDF book 
+          tinytex: true 
+
+      - name: Render Quarto site
+        run: |
+          quarto render --to html
+
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        with:
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _site  # Path to the rendered Quarto site
+          destination_dir: .       # Publish to the root of the gh-pages branch

.gitignore

@@ -47,3 +47,12 @@ po/*~
 
 # RStudio Connect folder
 rsconnect/
+
+.quarto/
+_site/
+
+/.quarto/
+
+*.Rproj
+
+renv/

_quarto.yml

@@ -0,0 +1,22 @@
+project:
+  type: website
+
+website:
+  title: "SEUS MBON Zooplankton Microscopy Analyses"
+  navbar:
+    left:
+      - text: Analyses
+        menu:
+          - qmd/mbon_zoo_viz.qmd
+          - qmd/simple_csv_check.qmd
+
+      - href: https://github.com/usf-imars/seus-mbon-zooplankton-microscopy
+        text: Source Code on GitHub
+
+format:
+  html:
+    theme: cosmo
+    toc: true
+    code-fold: true
+    message: false
+    warning: false

index.qmd

@@ -0,0 +1,2 @@
+# seus-mbon-zooplankton-microscopy
+Analyses of SouthEast US MBON research cruise zooplankton microscopy data.