# the most basic command for formatdb
# formatdb -i SELF_blast_database -p F -o F
# type "formatdb" on the command line to see all options for preparing blast databases
# path to the formatdb application (comes with blastall from NCBI) -i path to the database (add flags you want)
/users/www/htdocs/pseudomonas/blast/formatdb -i /users/www/htdocs/pseudomonas/cgi-bin/MINE/SELF_blast_database -p F -o F
echo "updated SELF_blast_database with formatdb for `/users/www/htdocs/pseudomonas/cgi-bin/MINE/`" >>
/users/www/htdocs/pseudomonas/cgi-bin/MINE/cron_log
# the echo command prints a message that the SELF_blast_database was updated and send it to a file
# called "cron_log" (change this file name and path to whatever you'd like)