[GATK4] Add rules using GATK4

[antonylebechec]

Same pipeline step can use GATK4, with spark or not :

• BWA Spark (BwaSpark)
• MarkDuplicates Spark (MarkDuplicatesSpark)
• Recalibration Spark (BQSRPipelineSpark)
• Haplotype Caller Spark (HaplotypeCallerSpark, GenomicsDBImport, GenotypeGVCFs)
• VariantFiltration
• VariantRecalibrator