Bug#977343: RFS: breseq/0.35.4+ds-1 [ITP] -- Find mutations relative to reference sequences

[Gürkan Myczko <gurkan@phys.ethz.ch>]

Hi Adam

> Alas, it fails tests -- then continues to build the package 
> successfully:

> ---> ERROR Required executable "bowtie2" or "bowtie2-build" not found.
> ---> See http://bowtie-bio.sourceforge.net/bowtie2
> ---> ERROR Required executable "R" not found.
> ---> See http://www.r-project.org

So I've updated the package including R and bowtie2 as deps, could you 
re-retry/review?

Best,