Conflicts:
	biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/BiopetExecutable.scala

Fixsamtofastq

Added java GC options to DEVELOP

See merge request !48

Feature merge alleles

Extends from !44
Also added a tool MergeAlleles and implemented in the gatk-variantcalling pipeline

See merge request !46

Feature fixbedtools cov stats

Please merge!@!@!
See also #68

See merge request !47

Conflicts:
	biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/BiopetExecutable.scala

Feature sample config create

TsvToJson parsen, see also #66

See merge request !45