Merge Thesis(Package) repos

[jasonratcliff]

Consolidate Thesis repositories by merging ThesisPackage into Thesis

• Stash unstaged changes to apply after merge
• Checkout new branch from Thesis master
• Add local remote for ThesisPackage master
• Merge commits from local repository, allowing unrelated histories:

git pull --allow-unrelated-histories local master

[jasonratcliff]

Shell string slicing for renaming scripts moved to inst/scripts to remove Fig prefix:

for path in inst/scripts/*; do
  old="${path}"
  new="${path/Fig/}"
  git mv "${old}" "${new}"
done

[jasonratcliff]

Replace ThesisPackage::save_plot() for figure script refactoring:

Addressed by #40

• 3c6c2c572fb754cb7aadcf655c1334f6fe5016c5