OverlayFS sould delete contents of upper directory after commit

General

EPM Version: 0.7.1

Modules: epm dev experiments git commands repositories docker fbs user

Steps to reproduce

1. Create a repository with overlayFS storage
2. Put lots of files and folders in it
3. Commit the repository

Expected behavior

All files are committed and moved from the upper directory to the lower directory. After the commit the upper directory is empty.

Actual behavior

Folder structure is still preserved in the Upper directory, also the "Work" directory is not cleared. OverlayFS believes the files have been deleted and does not show them.