the method to create a list of top hit id.s works
added a method to create a fasta file using the blastdbcmd command
method to create a fasta file now works
script works and sorts
added fam.family.analyzer.only... (used to check for family matches)
modified script to add e value and bit score
edited cgs.create... so that it works properly. also added the ability to create two output files. now outputs error files as well.
initial.blast... works