SharePoint Online How to administratively delete a file with zero file size

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I have setup a file repository with SharePoint online, it works very well for our current needs. However I have recently run into a situation where users have "uploaded" files that are indexed and shows "checked out" to that user, with zero file size. During normal maintenance,  I have taken "ownership" of the file in order to check it in. These files do not show up anywhere, can can not be deleted from that maintenance window. So now I have two files that can not be checked in and are not accessible. Is there another location where I can search for these files (or at least get to the index marker) so they can be removed? 

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