When using sphinx to build the documentation in the readthedocs repository there are a lot of warnings.
These are caused because:
Not all the files are included in a toctree
The glossary directive has been used to list the modules, and there are multiple definitions for some of the terms. For example Account is defined as "Fundamentals for most accounting needs." and also "Fundamentals for analytic."
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But using glossary seems to be a good semantic as the sentence following each link is a description. I think it will be bad to loose that for a raw listing.
I don't think the list of modules is a glossary. A glossary is a specific section where a (normally alphabetical) list of terms appear along with their definitions. These terms are then referenced from other parts of a document.
The way the module list is structured into different sections in different files, and with multiple terms (such as Account) with different definitions, suggests that it is not a glossary.