Removing system templates

This is to remove system templates from our codebase.

#### Tasks
- [x] Ruby code
- [x] Database
- [x] Python
- [x] Python tests
- [x] CSS
- [x] Top navigation menu (check with @ehelms)
- [x] Javascript
- [x] JSroutes
- [x] Apipie doc
- [x] Smoke tests
- [x] Tests all green