kiji-scoring-server: SCORSRVR-8. Change file and directory moves to use FileUtils

fixes tar.gz packaging.
adds feature to set base directory when starting a ScoringServer.

issue: https://jira.kiji.org/browse/SCORSRVR-8
review: https://review.kiji.org/r/1667
commit: https://github.com/kijiproject/kiji-scoring-server/commit/313336052f78a5323c6a3b8d88324d7cda72f41b