Issue with rendering pipeline stages ordering in core spec build

There is a logical ordering between certain pipeline stages listed in the Chapter 7.1.2:


However, if i follow standard build instructions (using `./runDocker` script), i got the Specification with incorrectly rendered this part of the document, no matter the output format (pdf/chunked/html):


This issue persists when i execute command
```bash
./makeSpec -clean -spec core chunked
```

But renders correctly when using `-spec` `khr/ratified/all`.

Start with the ./runDocker and ./makeSpec entry points, reproducing the core chunked build with ./makeSpec -clean -spec core chunked and comparing it with khr/ratified/all. Trace how Chapter 7.1.2 is rendered across PDF, chunked, and HTML outputs; done means the pipeline stages appear in the logical order in every format.

Written by the indexing model from the issue text.