Collected all gatk pipelines/artifacts into 1 maven project

.gitignore

bam-metrics/nbactions.xml

biopet-framework/nbactions.xml

flexiprep/run_flexiprep.sh

gatk/gatk-benchmark-genotyping/.gitignore

gatk/gatk-benchmark-genotyping/examples/test.json

gatk/gatk-benchmark-genotyping/nbactions.xml

gatk/gatk-benchmark-genotyping/pom.xml

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

gatk/gatk-genotyping/.gitignore

gatk/gatk-genotyping/examples/test.json

gatk/gatk-genotyping/nbactions.xml

gatk/gatk-genotyping/pom.xml

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

gatk/gatk-old/.gitignore

gatk/gatk-old/README.md

gatk/gatk-old/examples/test.json

gatk/gatk-old/nbactions.xml

gatk/gatk-old/pom.xml

.../main/scala/nl/lumc/sasc/biopet/pipelines/gatk/Gatk.scala