Updatd bamcheck mouse wrapper to use either mm9 or mm10 regions (ultra-high depth chr2 and 9 regions excluded)
Runner.pm and run-*: A major revision of Runner.pm which from now uses job arrays only. This change is transparent to existing runner pipelines unless they relied on internal workings in unsupported ways. One important change to note is the new +nocache option important when rerunning jobs. Although the module was thoroughly tested with several pipelines, problems are not entirely unexpected.
Merge branch 'develop' of /software/vertres/git/origin/vr-codebase into develop