[[!comment format=mdwn username="joey" subject="""comment 1""" date="2015-11-02T15:28:09Z" content=""" All the output of `git annex log`, `git annex whereis` and `git annex list` seems internally consistent. Which makes sense as there are 3 different views of the exact same data. Note that while `git annex log` shows 2 repositories "1T" and "500G" that contain the file, I guess those are both marked as dead, since whereis skipps dead repos and doesn't show them. So, that's all red herrings. The problem then is that fsck seems to say "fixing location log" but then apparently doesn't fix it, since it still complains the file is missing despite its contents being present. I have replicated the situation but I don't reproduce that happening: joey@darkstar:~/tmp/r>git annex setpresentkey WORM-s30-m1446479598--Bad\ Taste\ -\ Englisch.avi ebce24f6-3a26-4881-8855-62a0e0d33869 0 setpresentkey WORM-s30-m1446479598--Bad Taste - Englisch.avi ok joey@darkstar:~/tmp/r>git annex whereis Movies/Bad\ Taste\ -\ Englisch.avi whereis Movies/Bad Taste - Englisch.avi (0 copies) failed git-annex: whereis: 1 failed joey@darkstar:~/tmp/r>git annex fsck fsck Movies/Bad Taste - Englisch.avi (fixing location log) ok (recording state in git...) joey@darkstar:~/tmp/r>git annex whereis whereis Movies/Bad Taste - Englisch.avi (1 copy) ebce24f6-3a26-4881-8855-62a0e0d33869 -- joey@darkstar:~/tmp/r [here] ok Please show the commit that fsck makes to the git-annex branch. Ie, `git show git-annex` after running fsck. In my example above, that commit included: --- a/33f/807/WORM-s30-m1446479598--Bad Taste - Englisch.avi.log +++ b/33f/807/WORM-s30-m1446479598--Bad Taste - Englisch.avi.log @@ -1 +1 @@ -1446479600.453526s 0 ebce24f6-3a26-4881-8855-62a0e0d33869 +1446479680.344119s 1 ebce24f6-3a26-4881-8855-62a0e0d33869 """]]