Merge branch 'feature_annotation_versions' into 'develop'

...scala/nl/lumc/sasc/biopet/pipelines/basty/BastyTest.scala

...e/src/main/scala/nl/lumc/sasc/biopet/core/Reference.scala

...la/nl/lumc/sasc/biopet/core/annotations/Annotations.scala

...c/test/scala/nl/lumc/sasc/biopet/core/ReferenceTest.scala

.../nl/lumc/sasc/biopet/core/annotation/AnnotationTest.scala

...c/main/scala/nl/lumc/sasc/biopet/extensions/GffRead.scala

...s/src/main/scala/nl/lumc/sasc/biopet/extensions/Sed.scala

.../lumc/sasc/biopet/extensions/VariantEffectPredictor.scala

...l/lumc/sasc/biopet/extensions/gatk/BaseRecalibrator.scala

...la/nl/lumc/sasc/biopet/extensions/gatk/CombineGVCFs.scala

...a/nl/lumc/sasc/biopet/extensions/gatk/GenotypeGVCFs.scala

...nl/lumc/sasc/biopet/extensions/gatk/HaplotypeCaller.scala

.../sasc/biopet/extensions/gatk/RealignerTargetCreator.scala

...l/lumc/sasc/biopet/extensions/gatk/UnifiedGenotyper.scala

...l/lumc/sasc/biopet/extensions/gatk/VariantAnnotator.scala

...ala/nl/lumc/sasc/biopet/extensions/gatk/VariantEval.scala

...la/nl/lumc/sasc/biopet/extensions/hisat/Hisat2Build.scala

...l/lumc/sasc/biopet/extensions/picard/NormalizeFasta.scala

...main/scala/nl/lumc/sasc/biopet/BiopetExecutableMain.scala

...c/sasc/biopet/extensions/tools/DownloadNcbiAssembly.scala