give alignment filter output default json suffix reflecting its content
Name change for WTSI DNA Pipelines second stage RNAseq pipeline
Merge remote-tracking branch 'wtsi-npg/devel' into devel
Add a template for WTSI second stage (PhiX alignments exist) bwa mem processing
parameterise num_threads to use in main alignment node
Merge pull request #16 from dkj/devel

Production pipeline template additions and improvements