A simple php file that will set files permissions to 0644 and folders permissions to 0755. And it will delete the cache of the OpenCart OCmod and the VQmod. It will work with most of the 2.X versions, you can try... no risk at all.
Updated on (21/Feb/2017) to clean the OCmod cache as well.
1) Unzip the zip file and copy the repair.php file to main directory of your store.
2) Visit Store-Domain.com/repair.php
3) Visit your store again (Store-Domain.com only) to recreate the deleted files