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For a new project, the easiest thing to do is probably to create an empty directory structure, like this:
$ mkdir tc $ mkdir tc/man $ mkdir tc/testing  | 
After that, you use the import command to create
the corresponding (empty) directory structure inside
the repository:
$ cd tc $ cvs import -m "Created directory structure" yoyodyne/dir yoyo start  | 
Then, use add to add files (and new directories)
as they appear.
Check that the permissions CVS sets on the
directories inside $CVSROOT are reasonable.