I\'m not quite sure how this happened, but somehow a completely empty hierarchy of directories has ended up in my repository:
com/ com/companyname/ com/compa
This worked for me. Basically When you do
rmdir -v /CVSROOT/project/emptyDirectory # We are deleting directory from CVS repository directory.
If you have repository unix server login access, you can travel to the path and can delete the directory,or raise the same concern with unix team.