A Quarto Question (or Six)

I am converting the notes for &ldquo;Managing Research Software Projects&rdquo; from McCole to Quarto. Most of the changes have gone smoothly, but I&rsquo;m stuck on a few things and would appreciate guidance. For reference, the materials are in this repository and you can view the rendered version here . The landing page shows the contents of index.qmd (which is good) but that page shows up as…