Add support for snpEff
Add GATK VariantAnnotator tasks and tests
Add task for printing global configuration
Update issue info
Add annovar
Move config handler to interface, do global loading, add global_config via interface
Merge origin/develop to feature/annotation-pipeline
Add variable expansion to config parser
Add which function
Merge remote-tracking branch 'origin/develop' into feature/annotation-pipeline
Add java function to picard
Merge branch 'develop' into feature/annotation-pipeline
Minor additions to annovar
Add summarize_annovar and tests
Add assert statements to annovar tests
Merge branch 'feature/annotation-pipeline' into develop
Include header and date in print config task
Add reference to picard programs
Add ref to picard
Update formatting of -nt