Fixed untrimmed paired output option
Fixed untrimmed paired output option

AntonioJBT/CGATPipeline_core,AntonioJBT/CGATPipeline_core,CGATOxford/CGATPipelines,CGATOxford/CGATPipelines,AntonioJBT/CGATPipeline_core,CGATOxford/CGATPipelines,CGATOxford/CGATPipelines,AntonioJBT/CGATPipeline_core,CGATOxford/CGATPipelines