Added option of reporting gene_name instead of gene_id in htseq count files.
Added gathering of SGE information from command line
Merge branch 'master' of https://github.com/chapmanb/bcbio-nextgen
Reverted count files back to using gene_id solely
Merge branch 'master' of https://github.com/chapmanb/bcbio-nextgen
Revert files to match upstream
Merge pull request #265 from mjafin/master

Added gathering of SGE information from command line