Remove protected source file from public artifacts

.../lumc/sasc/biopet/extensions/gatk/AnalyzeCovariates.scala

...lumc/sasc/biopet/extensions/gatk/ApplyRecalibration.scala

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

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

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

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

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

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

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

...cala/nl/lumc/sasc/biopet/extensions/gatk/PrintReads.scala

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

.../nl/lumc/sasc/biopet/extensions/gatk/SelectVariants.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

...umc/sasc/biopet/extensions/gatk/VariantRecalibrator.scala

...ain/scala/nl/lumc/sasc/biopet/pipelines/basty/Basty.scala

.../sasc/biopet/pipelines/gatk/GatkBenchmarkGenotyping.scala

...a/nl/lumc/sasc/biopet/pipelines/gatk/GatkGenotyping.scala

...ala/nl/lumc/sasc/biopet/pipelines/gatk/GatkPipeline.scala