On what platform are you playing?
PC. I've tried using the setstage command though.
Since it appears that you are on PC, the Unofficial Skyrim Patch should fix this bug, if you are willing to use it. According to the http://www.uesp.net/wiki/Skyrim:Containment#Bugs, a console command may work to progress the quest too, but be aware that this can sometimes lead to further unexpected problems if something is already bugged. Loading a previous save several stages back may also solve this issue.
I already have all the unofficial patches,but the bug is still there.
It's possible that this may have been a non-retroactive fix then, I'm not sure. It also could be that this is a different issue than the one the Unofficial Paches fixed. The bug was also fixed with one of the more recent USKP releases (v. 2.0.5), but I would assume you are probably up to date.