Merge pull request #16 from wtsi-npg/master

pull request from wtsi master to devel (release 49.4)
Additions for Ref_Maker to generate bwa 0.6 indices
Merge pull request #18 from jidur/bwa_mem

Additions for Ref_Maker to generate bwa 0.6 indices
use Biobambam bammarkduplicates2 in place of bammarkduplicates
Merge pull request #19 from dkj/devel

use Biobambam bammarkduplicates2 in place of bammarkduplicates
tests fixed following redefinition of lane-level split flags in npg_tracking
Merge pull request #20 from mgcam/test_fix

tests fixes following redefinition of lane-level split flags in npg_tracking
remove redundant interface for changing run status via the web service
Changes update
Merge pull request #21 from mgcam/remove_status_libs

remove updating run status via post request
Merge pull request #22 from wtsi-npg/devel

pull from wtsi devel to master to create release 49.5