modified to work with clade_locus rather than just clade

This is the format used for ITS. I will have to change the rbcX folder to Nostoc_rbcX

I could also change all of the subfiles, but that is optional at this point
Scripts now add information about clade membership to the Database

I will need to add an extra column to the rbcX_metadata file to accommodate this
minor bug fixes

modified code to separate parts of dataset name

cd to directory named after dataset instead of locus
changed python commands to explicitily invoke python from the command line

This seems like the simplist way to make the scripts run with the default
python interpreter on different systems which is important because I'm
running into problems with different setups
Changed all file names to include the group as well as the locus

rbcX -> Nostoc_rbcX
Added ' unix_socket="/tmp/mysql.sock" ' to DB connection

This is necessary on my laptop for some reason
Merge pull request #6 from hobrien/working

Working