Hooked up plugin runner test to a lite version of test harness
Implementing pluginRun with a lite test harness junit test
runPlugin now works with a dummy plugin, trouble instantianting imput class in runPlugin function
Removed FeaturePluginRunner class.
moved blank query checking to JSONQueryParser
Removed excess console notifs, comments
Enabled testFeatureSet testing in unit test
Refactoring + updating comments
Removed unused Global.java
Removed nonexistant import
Fixed import
Merge pull request #16 from SeqWare/feature/PluginRunner

Feature/plugin runner
Merge branch 'develop' into feature/ADAMVariants
Last-minute fixes