Improved citation key for bibtex: Added a script to automatically generate and update citation keys in QMD files. This resolves formatting issues caused by characters like underscores in the original citation keys.
The references.bib file causes significant conflicts when multiple people work on their chapters. Therefore, we are dividing the references.bib file into individual chapters. This approach has its own drawbacks, such as the potential duplication of references. However, we can implement checks for this in the future. For now, this method reduces merge conflicts.
Better organization for the future to build a PDF etc. cause images need to be pulled from the right type for quality rendering. Currently, not being used but will be useful in the future and plus the organization now doesn't hurt by any means, only makes the "code" cleaner.
We put all the QMD files under their own directory structure. The directory contains the QMD file and also an images directory, so each chapter is now self-contained
As part of this reorg, I updated the links to images etc. to make sure they are all pointing to the right location
