Changed exit codes from 0 to 1 on error
Adding additional files created for 1000 E. coli paper to add new genomes that don't have tax_ids, add protein and pfam information, write the sigma field, and then extract an fsa from the database.

And convert, etc that are needed for genome atlas generation.
Merge branch 'master' of http://github.com/GingerbreadNinja/CBS_Genome_Atlas