[[!comment format=mdwn
 username="https://www.google.com/accounts/o8/id?id=AItOawkSq2FDpK2n66QRUxtqqdbyDuwgbQmUWus"
 nickname="Jimmy"
 subject="comment 16"
 date="2011-04-03T16:02:33Z"
 content="""
I think the correct steps should be, make a backup first :) then ...

1. git pull  # update your clone, and commit everything so you don't lose anything
2. git annex fsck --fast # check the repo first, just in case
3. rm -rf .git-annex/?? # remove the old metadata
4. git annex fsck --fast # get git annex to regenerate it all
5. push your changes out to your other repos, you will need to make sure git-annex is updated everywhere if there are remotes in your setup.

I eventually migrated all of my own annex'd repos and I no longer have the old hashed directories but the new ones in the form

    .git/annex/aaa/bbb/foo.log

I did lose some tracking information but not data (as far as I can see for now), but that was quickly fixed by pushing and pulling to my bare repo which tracks most of my data.

I also found that it worked a bit more reliably for me on the copies of repos that were located on case sensitive filesystems, but I guess that was expected.
"""]]