Bugfix samstat output
Bugfix genome digestion
Merge branch 'masai_fseq'
input check refactored
Merge branch 'masai_fseq'
help text corrected
Bugfix commontask output folder specification
final updates for gatk2.8-1; bugfix gatkVAR.sh, citation postcommand; addition: ignore of citation for smokebox diffparser
bugfix diffparser
Merge branch 'master' of github.com:BauerLab/ngsane
genome indexing included in test
Merge remote-tracking branch 'upstream/master'
smoketest updated
target file location updated
Merge remote-tracking branch 'clark-lab/master'
bugfix: result files list in Summary.html
smokebox update varcall for new picard and bwa
bugfix: SummaryVarcalls
Merge branch 'master' into masai_fseq