Conflicts:
	public/biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/BiopetQScript.scala

Fix remove temp files

I did see a lot of temp files that where not removed after testing. This will remove all temp files on exit of a tool / test.

See merge request !238

Fix summary when --sample flag is used in multisample pipelines

Fixes #206 

See merge request !237

Add et option to gatk jobs

Added the et option to gatk.

@a.h.b.bollen: could you maybe test this? I don't have a key

See merge request !169