This makes make the migrated file functions available to parts of the code that don't have access to a File object. They still exist as wrappers in the File object to support remote calls.
Fixed an issue where document generation failed because some OSs are not tolerant of having multiple installed versions of PostgreSQL. A separate VM is now created for each version. Also added a sleep after database starts during document generation to ensure the database is running before the next command runs.
Reported by John Harvey.
1) Started on a general markdown renderer
2) Internal links now work in PDF
3) Improvements to PDF styling
4) Some comment and formatting fixes
5) User guide edits.
