Server/Core: fix missing bundle error

Bundles could be converted into Independent tags, so we need to check
Bundle and Independent elements in the generated structure to find
all requested bundles.
Merge pull request #243 from AlexanderS/fix-missing-bundle

Server/Core: fix missing bundle error
Bcfg2/Options/Parser: fix --version option, add test
Merge branch 'fix-version' of https://github.com/AlexanderS/bcfg2