Settings {
  PackagePaths {
    pathRoot = MY_CHECKOUT_PATH

    path = FMEstable/Foundation
    path = FMEstable/General
    path = FMEstable/Release

    path = FMEwork/ThirdParty
    path = FMEwork/General
    path = FMEwork/ITK
    path = FMEwork/VTK 

    //path = MeVisLab/Standard
    //path = MeVisLab/Foundation
  }
  ...
}

If you only need certain packages, enable/disable individual packages here by (un)commenting them. MY_CHECKOUT_PATH has to be set to the root of the repository checkout (where the MeVisLab and FMEwork/FMEstable directories are located).