VCFMAIN: Optimizing & refactoring code. Added a 'chain of responsabilities' to VariantMain
VCFCLI: Added some annots/filters to CLI
VCFRUNNER: Added launchPre & launchPost to Runner
VCFRUNNER: Added the pre/post initial code to Runner. Fixed the logger
VCFCLI: Added the gene and consequencetype filters to cli
VCFSERVER: Moved the WsSqliteManager to OpenCGA Storage
VCFSTATS: Changed the models and added new test
VCFEFFECT: Added the new library for effect calculations
Unified the Index & Vfc interfaces
VCFCLI: Added the Storage objects. Moved json-objects to Java-common-libs. Added opencga-storage dependencies
Support for studies consisting of a VCF (+ PED) file
VCFSTATS: Optimizing & Refactoring Stats. Merged stats in VcfStats
VCFEFFECT: Reorganize imports
VCFCLI: Added EVS annotation to command line options
VCFCLI: Added EVS annot to cli
VCFCLI: Added the options for snpannot to cli
VCFCLI: Added annot-control-list options to cli
VCFCLI: Conflict Resolved (duplicated dependencies)
VCFCLI: Uncommented annot-control-evs options
Added the new versions of the VariantStats classes