- Refine introduction and background chapters for clarity and coherence.
- Enhance reproducibility chapter by connecting challenges to infrastructure requirements.
- Add new references to support the thesis arguments.
- Update .gitignore to include IDE files.
- Modify hyperref package usage to hide colored boxes in the document.
Add geometry package with explicit margins and remove manual page
dimension adjustments. Enable double spacing via setspace and switch to
myheadings pagestyle. Redefine \frontmatter to start roman numbering at
page 4. Modify \maketitle to set page 3 and use singlespace for the
title page. Remove the explicit \frontmatter call from thesis.tex.
