Updates to CLP documentation in preparation of the single CLP jar
Slight update to usage information text
Merge pull request #28 from broadinstitute/jg_branch_nh_single_clp

Updates to CLP documentation in preparation of the single CLP jar
Merge pull request #27 from broadinstitute/gg_branch_nh_single_clp

Slight update to usage information text
Edit CommandLineProgramProperties annotations.