smokebox first version
Merge branch 'master' of github.com:allPowerde/ngsane into iss9
Merge branch 'master' of github.com:allPowerde/ngsane into iss9
Merge remote-tracking branch 'gurado/master'
next version of smokebox
ai updated
splitting tophat and bowtie pipelines into smaller segments
bugfix statistics and pipelining
bugfix bwa
bugfix permissions
Merge branch 'topcuff' of github.com:Gurado/ngsane into topcuff
bugfix cufflink module
Merge remote-tracking branch 'upstream/iss9' into smokebox
cufflinks summary added
cufflinks summary added
htseqcount wip
refactored job recovery system
optimized htseqcount
smokebox add missing HPC header
Checkpointing pattern reverted