added missing sequences from DB
removed Asterochloris seqs
added midpoint rooting before OG rooting and to excluded Clade URa2 from clade labeling

-midpoint rooting was necessary because the tree was rooted by one of the taxa in the
outgroup clade, causing the entire tree to be selected as the outgroup clade

-URa2 was monophyletic in a previous analysis, but it not in this one
This merge combines edits done at home and at work. I need to get better at updating before making changes

Merge branch 'master' of https://github.com/hobrien/PhotobiontDiversity
updated with sequences that were in DB but missing from sequence dataset
updated with sequences that were in DB but missing from sequence dataset
added error catching code for cases where no options are specified