sys-fs/bedup-0.9.0_p20130806 does not work very well with >=dev-python/sqlalchemy-0.9.[1][2] This was fixed upstream on 2014-04-13.[3] Please make another snapshot containing this fix. :-) 1: https://github.com/g2p/bedup/issues/39 2: https://github.com/g2p/bedup/issues/42 3: https://github.com/g2p/bedup/commit/5189e166145b8954ac41883f81ef3c3b50dc96ab