chapmanb/bcbio-nextgen — pull request #552 by matted (2014-08-20 17:30:08+00:00)
Title: Add a dummy readgroup to bowtie2 alignments.

We encountered a minor problem where bams created with bowtie2 fail in downstream processing because they lack read groups. This patch creates a dummy read group ID with a bowtie2 command flag and lets the bowtie2 chip-seq pipeline complete without errors.