HTML: Sections rendered within Callouts containing a desginated title will increment section-numbering in the TOC, but do not show on the TOC itself, resulting in gaps therein

Bug description

When encompassing a section within a callout which has its title explicitly defined, this section will no longer be rendered as part of the TOC when converting to html. The line will still be visually rendered as a section within the callout; it will just not appear on the TOC. See Section 2.

• As expected, callouts which take their name implicitly from the first header encountered within do not exhibit this problem; as they convert that heading to the name of the callout and remove it from their body (see Section 3).

• Callouts which encounter normal text before the first heading within will render that heading properly within the document-body, but will not add it to the TOC (this functions as expected, see Section 4).

Callouts which begin with a heading will render that heading properly within the document-body, but will not add it to the TOC (as expected).

Steps to reproduce

1. Create the following note:

---
title: "T"
format: 
  html:
    toc: true
    toc-depth: 3
    number-sections: true
    number-depth: 3
---


# Section One

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.  
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.  
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

::: {.callout-important collapse="true" title="Step-By-Step-Guide to populating section '1. Grouping' when facetting."}  

# Section 2

 Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.  
 Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.  
 Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
 
:::
::: {.callout-important collapse="true"}  

# Section 3

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.  
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

:::
::: {.callout-important collapse="true"}  

dawdwa

# Section 4

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.  
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

:::

# Section 5

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.  
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

2. Convert the document via the CLI, using

quarto render index.qmd

Alternatively, use the quarto-package for R, which yields the same results. Code was run via RStudio, session was refreshed immediately before execution.

3. Inspect the results

Expected behavior

If a section is rendered as such, it should be part of the TOC. It could be argued that sections within callouts should not be rendered into the TOC, but in that case they certainly should not increment the TOC's numbering.

That means that Section

• 1 should be numbered and be part of the TOC. As it is rendered in the TOC, it should increment the section numbering in the TOC. (works)
• 2 should either not be rendered as a section in the text, or be rendered as a section and be part of the TOC. It should increment the section numbering in the TOC if it is rendered in the TOC.
• 3 should not be part of the TOC as it got converted to the callout's title. It should not be part of the TOC and should not increment section numbering
• 4 should either not be rendered as a section in the text, or be rendered as a section and be part of the TOC. It should increment the section numbering in the TOC if it is rendered in the TOC.
• 5 is a completely normal section, outside any callout. It should be rendered. (works)

Actual behavior

Sections 2 & 4 do not show up in the TOC although they are rendered in the text.
Section 3 is not rendered as a section at all, instead gets converted to the callout's name.

Your environment

R-version via version:

platform       x86_64-w64-mingw32               
arch           x86_64                           
os             mingw32                          
crt            ucrt                             
system         x86_64, mingw32                  
status                                          
major          4                                
minor          2.3                              
year           2023                             
month          03                                            
day            15                               
svn rev        83980                            
language       R                                
version.string R version 4.2.3 (2023-03-15 ucrt)
nickname       Shortstop Beagle                 

RStudio.Version():

$mode
[1] "desktop"

$version
[1] ‘2023.6.1.524’

$long_version
[1] "2023.06.1+524"

$release_name
[1] "Mountain Hydrangea"

OS:

SystemModel : 			HP ENVY x360 Convertible 15-eu0xxx
SystemCPU : 			AMD Ryzen 5 5500U with Radeon Graphics 
SystemGPU : 			AMD Radeon(TM) Graphics v30.0.14056.5001 @ 512.00 MB RAM
SystemType : 			x64-based PC
SystemRAM : 			15696 MB
SystemOS : 				10.0.22621 64-bit  v10.0.22621 (WIN32_NT)
SystemLocale : 			de-DE (0x0407)

Quarto check output

[>] Checking versions of quarto binary dependencies...
      Pandoc version 3.1.1: OK
      Dart Sass version 1.55.0: OK
[>] Checking versions of quarto dependencies......OK
[>] Checking Quarto installation......OK
      Version: 1.3.433
      Path: C:\Users\Claudius Main\AppData\Local\Programs\Quarto\bin
      CodePage: 1252

[>] Checking basic markdown render....OK

[>] Checking Python 3 installation....OK
      Version: 3.11.1
      Path: C:/Users/Claudius Main/AppData/Local/Programs/Python/Python311/python.exe
      Jupyter: (None)

      Jupyter is not available in this Python installation.
      Install with py -m pip install jupyter

[>] Checking R installation...........OK
      Version: 4.2.3
      Path: C:/Users/CLAUDI~1/AppData/Local/Programs/R/R-42~1.3
      LibPaths:
        - C:/Users/Claudius Main/AppData/Local/Programs/R/R-4.2.3/library
      knitr: 1.43
      rmarkdown: 2.22

[>] Checking Knitr engine render......OK

Start by running quarto render index.qmd with the reproduction document and inspecting the generated HTML TOC alongside Sections 2–5. Trace the Quarto CLI's HTML callout and section-numbering handling to determine why rendered headings are counted but omitted from the TOC. Done means the documented callout cases produce consistent TOC entries and numbering.