Added JSON output to listGroups and allowed json to be activated with -j (#401)

Added JSON output to listGroups and allowed json to be activated with -j (#401)

* Added json output to listGroups and allowed json to be activated with -j

* Renamed classes

* Added AsamK's suggestions

* Removed isRegisted check since that is causing a conflict with upstream

* Fixed an issue in the help message for listGroupsCommand

* Re-enabled --json for receive and getUserStatuses commands as deprecated

* Added better depricated warning message and clarified some java doc stuff