Create Init command for intializing a repository in the current directory
Use an inited clod repository directory for storage instead of ~/.clod

Previously we just stored everything to ~/.clod directly. Better to allow
specific repositories to be created, similar to git. We still store logs
and telemetry in ~/.clod, should find better locations for those.
Merge pull request #6 from danstiner/repository_dirs

Store data in manually created repository directories rather than defaulting to the home dir