Move comparisons to reference materials into separate parallel task to provide more specific timings of analysis steps
Added analysis-specific summary creation.
Added GTF->refFlat converter.
Added functions to find files in the galaxy/genome directory.
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Added rRNA contamination metric.
Tweaking of timing logging to provide easier to grab data points
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Remove debugging import