Production env

Looks like a lot of changes, but is more copy-and-paste than anything else.  Basically, broke code out into managebly-sized functions and added a function to create the production environment.
Stable URL for gg_13_8 97% tree [here](ftp://greengenes.microbio.me/greengenes_release/gg_13_5/gg_13_8_otus/trees/97_otus_unannotated.tree)