[Finishes #60265666] Make start and stop script output more consistent

 - Do not try to start jetty if it is already running
 - Do not try to stop alpine if there is not PID_FILE and existing process
 - Consistent formatting
[#60216742] Migrate to Chorus organization

 - Updates chorushdfs submodule remote url (`git submodule sync`)
 - Update Gemfile[.lock] to reflect github based gem org change
 - Minor wiki updates