Books & menus

[giabaio]

Hi all,
This may well be me getting the grips with wowchemy modules and missing some obvious point, so please bear with me!

So: I have a couple of websites and I am experiencing a slightly weird behaviour of the menus for the book content...
The first one is online here. There are two folders that contain content formatted as "books": book (dah...) and software. I use blogdown and manage the whole site from R. The two folders are structured as follows

content/
   book/ 
      _index.md
      book1/
         _index.md
         some_other_file.md
      book2/
         _index.md
         some_other_file.md
      book3/
         _index.md
         some_other_file.md

content/
   software/ 
      _index.md
      software1/
         _index.Rmd
         some_other_file.Rmd
      software2/
         _index.Rmd
         some_other_file.Rmd
      software3/
         _index.Rmd
         some_other_file.Rmd

(I'm simplifying slightly here because there are other files all over...).

Now, when I compile it and preview the site locally, all seems to work OK, but I note an interesting difference: the book folder shows all the sub-menus on the left-hand side, ie all the books (and the sub-documents) show up. Conversely, for the software folder, that doesn't happen, locally. Only the top-level item shows up (so if I'm previewing software1, the menu shows software1/some_other_file only, but not the other software items. Interestingly, the problem goes away when I publish it online (you can see it from here and here.

To confuse me even further, I now have another site (which I can't share just yet), where the structure is the following

content/
   ...
   practical/
      _index.md
      01/
         _index.Rmd
         solutions.Rmd
      02/
         _index.Rmd
         solutions.Rmd
      03/
         _index.Rmd
         solutions.Rmd
      ...

In this case, neither locally nor when I publish under my institutions server, the full menu show up. Is it to do with the fact that the _index pages have the Rmd extension? (I have tried to rename them to .Rmarkdown, but to no avail...).

My apologies again if trivial and/or not clear - any help appreciated!
Gianluca

[rodrigoalcarazdelaosa]

Can you share the source code of those files. I have a book structure in my website. Live version here, source here. Take a look and compare your setup to see if it helps you 🤗

[giabaio]

For my new site, I think I managed to fix this by starting afresh. I've made a new version of that one, (based on the Research Group Template), copied the pages and recompiled it and things seem to work OK now. I'm not sure what's changed to be honest -- the only thing that for sure was different is that this time I set up the practical folder as type="book" from the beginning (while before it wasn't). The links appear correctly on that one now.

As for my old one, it's gone through several iterations (as it's fairly old and originally written under hugo-academic, but recently migrated to wowchemy).

This is the YAML for the page that works (eg the links are shown correctly for all the pages in the folder "book")

---
title: "Bayesian Cost-Effectiveness Analysis with the R package BCEA"
author: "Gianluca Baio"
date: 2018-03-10T22:16:14-05:00
publishdate: 2020-08-04
categories: ["R"]
tags: ["BCEA", "Bayesian statistics", "Health economics"]
image_preview: "BCEA_cover.jpeg"
disable_comments: true
weight: 20
type: book
---

while this is the YAML for the one that doesn't work (locally, only one page and it's children are shown in the left-hand-side bar, but not the other pages)

---
title: "BCEA: An R package to perform Bayesian Cost-Effectiveness Analysis"
author: "Gianluca Baio"
linktitle: "BCEA"
date: 2018-03-10T22:16:14-05:00
publishdate: 2020-09-21
categories: ["R"]
tags: ["BCEA", "Bayesian statistics", "Health economics"]
disable_comments: true
weight: 10
type: book
links:
  - icon_pack: fab
    icon: github
    name: Code
    url: 'https://github.com/giabaio/BCEA'
  - name: "Go to project site"
    url: http://www.statistica.it/gianluca/book/bcea

bibliography: ["/home/gianluca/Dropbox/Perso/Office/CV/mypubs.bib"]
nocite: |
    @Baio:2012, @Baioetal:2016
---

Like I said yesterday, the only real difference is that all the _index files under the second folder (software, which doesn't "work") are .Rmd, while the ones in the folder that does work (book) are .md. But then again, in my new site that I've started over last night, the _index pages are .Rmd and things now work...

Anyway, I don't think it's a big deal, as overall the published versions do as I want - at this stage perhaps more of a curiosity... For reasons you don't wanna know (mostly to do with my children harassing me... :-)) I can't share the site now, but can do later if there's something obvious I'm missing that people can think of from this...

Thanks @rodrigoalcarazdelaosa for yours!
Gianluca

[rodrigoalcarazdelaosa]

Like I said yesterday, the only real difference is that all the _index files under the second folder (software, which doesn't "work") are .Rmd, while the ones in the folder that does work (book) are .md. But then again, in my new site that I've started over last night, the _index pages are .Rmd and things now work...

The Wowchemy docs recommend using the .Rmarkdown extension rather than the .Rmd but that's probably not key here. Also if you see different behavior locally and when published, make sure your Hugo versions are the same.

[nick-zhy]

If I use .Rmarkdown, there will be something wrong with the math formula rendering. A pair of backticks will contain the formula so that the formula can't be rendered correctly.