Fix autoupdater read configuration from master branch

Bug description

When autoupdater starts to update some project in which autoupdater configuration has change since last update it reads configuration from master branch and uses it to find current versions in files from diffrent branch.

Possible solutions

1. Make rebase and reset just after check if branch is outdated then find packgaes versions.
2. Redefine Repository class in way it reads configuration from cuurent branch.