It looks like your andromda.xml is using MDR as the repository, you need to change that to emf (MDR can't process '.uml2' files). If you regenerate a project using andromdapp and choose uml2, it should generate the correct configuration for you.
Or you can change repositories in the timetracker/mda/src/main/config/andromda.xml yourself, it should look something like this:
Chad Brandon - chad [at] andromda [dot] org
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