Merge branch 'develop' into feature-vcf_stats

.../lumc/sasc/biopet/extensions/conifer/ConiferAnalyze.scala

.../nl/lumc/sasc/biopet/extensions/conifer/ConiferCall.scala

...l/lumc/sasc/biopet/extensions/conifer/ConiferExport.scala

.../nl/lumc/sasc/biopet/extensions/conifer/ConiferRPKM.scala

...in/scala/nl/lumc/sasc/biopet/extensions/macs2/Macs2.scala

.../nl/lumc/sasc/biopet/extensions/macs2/Macs2CallPeak.scala

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

...nl/lumc/sasc/biopet/extensions/picard/MergeSamFiles.scala

.../scala/nl/lumc/sasc/biopet/extensions/picard/Picard.scala

...la/nl/lumc/sasc/biopet/extensions/picard/SamToFastq.scala

...umc/sasc/biopet/extensions/samtools/SamtoolsMpileup.scala

...scala/nl/lumc/sasc/biopet/extensions/seqtk/SeqtkSeq.scala

...c/sasc/biopet/pipelines/MultisamplePipelineTemplate.scala

...rc/main/scala/nl/lumc/sasc/biopet/scripts/FastqSync.scala

.../src/main/scala/nl/lumc/sasc/biopet/tools/FastqSync.scala

...rc/main/scala/nl/lumc/sasc/biopet/utils/ConfigUtils.scala

.../test/scala/nl/lumc/sasc/biopet/tools/FastqSyncTest.scala

...est/scala/nl/lumc/sasc/biopet/utils/ConfigUtilsTest.scala

public/biopet-public-package/pom.xml

...ala/nl/lumc/sasc/biopet/core/BiopetExecutablePublic.scala