Arrange file modes : 755 => 644

Following extensions kept remain 755:
 - .sh
 - .bash
 - .sample (https://git-scm.com/book/en/v2/Customizing-Git-Git-Hooks)
Following extensions changed into 644:
 - Scripts
   - .json
   - .js
   - .html
   - .mel
 - Resources
   - .3mf
   - .dae
   - .jpg
   - .wrl
 - MISC
   - README.md
   - LICENSE