added in use of configuration files
Merge branches 'configs' and 'master' of https://github.com/PDX-Flamingo/codonpdx into configs
Fixed some config issues.
Updated gradle file.
Fixed CodonDB to match new schema and give shuffle score results + description.
Changed configs to sample configs
Merge pull request #8 from PDX-Flamingo/configs

Configs
fix some bugs
Update sample-mq.properties

quotes were breaking things.
Merge branches 'csv' and 'master' of https://github.com/PDX-Flamingo/codonpdx into csv