_quarto.yml

project:
  type: book
  output-dir: _book

# Book formatting types and options
format:
  html:
    theme: 
      - cosmo
      - test_quarto_book_styles.scss
    # mainfont: Roboto # For testing (https://ucsb-meds.github.io/customizing-quarto-websites/#/select-fonts)
  # pdf:
  #   documentclass: scrreprt
    
# Add this in order to use webR
filters:
  - webr

# Bibliography and citation options
bibliography: references.bib
csl: ama.csl

# Set editor to default to source view instead of visual view
editor: source

# To make sure that R, Python, and Julia code is only executed locally, 
# configure your project to use Quarto’s freeze feature by adding this to your 
# _quarto.yml. (https://quarto.org/docs/publishing/netlify.html)
execute:
  freeze: auto

# Book structure and options
book:
  # Basic metadata
  title: "R Notes"
  author: "Brad Cannell"
  date: today # Figure out how to automatically update the date on render.
  favicon: cover.png
  repo-url: https://github.com/brad-cannell/test_quarto_book
  repo-actions: [edit]
  page-footer: 
    left: |
      R for Epidemiology
    right: |
      This book was built with <a href="https://quarto.org/">Quarto</a>.
  
  # Book options
  search: true
  # downloads: [pdf, docx] # https://quarto.org/docs/books/book-output.html#sidebar-tools
  # sharing: [twitter, facebook]
  page-navigation: true # Haven't played with this much yet. https://quarto.org/docs/books/book-structure.html#page-navigation

  # Chapter sturcture
  # https://quarto.org/docs/books/book-structure.html
  chapters:
    # Index is the landing page for the HTML version of the book.
    - index.qmd
    
    # My chapters
    # Parts can be qmd files (if you want explanitory text) or characater strings
    # if you only want a part title.
    # The qmd file method does not look good in pdf format.
    - part: "Programming"
      # Make sure to type "chapters" again under each part.
      chapters:
      - chapters/rstudio/rstudio.qmd
      - chapters/regex/regex.qmd
      - chapters/programming_with_functions/programming_with_functions.qmd
      - chapters/packages_quick_start/packages_quick_start.qmd
      - chapters/stata/stata.qmd
      
    - part: "Data Simulation"
      # chapters: 
      #   - chapters/call_out_boxes.qmd
        
    - part: "Working with External Files"
      chapters:
        - chapters/google_sheets/google_sheets.qmd
        
    - part: "Data Management"
      # chapters: 
      #   - chapters/pdf.qmd
      
    - part: "Analysis"
      # chapters: 
      #   - chapters/pdf.qmd
      
    - part: "Data Visualization"
      # chapters: 
      #   - chapters/pdf.qmd
      
    - part: "Presenting Results"
      chapters:
        - chapters/officer/officer.qmd
      
    - part: "Collaborating"
      # chapters: 
      #   - chapters/pdf.qmd