import sys
import csv

import utilities
import datastructure
import phenotypes

def main(argv):
    # config
    config = utilities.get_config(argv[1])
    print("config:")
    for item in config.items('config'):
        print(("\t%s" % (str(item))))
    # var
    print("variable:")
    inbredsetid = config.get('config', 'inbredsetid')
    print(("\tinbredsetid: %s" % inbredsetid))
    # datafile
    datafile = open(config.get('config', 'datafile'), 'r')
    datafile = csv.reader(datafile, delimiter='\t', quotechar='"')
    delrowcount = 0
    for row in datafile:
        if len(row) == 0:
            continue
        try:
            publishxrefid = int(row[0])
        except:
            continue
        delrowcount += phenotypes.delete(publishxrefid=publishxrefid, inbredsetid=inbredsetid)
    print(("deleted %d phenotypes" % (delrowcount)))

if __name__ == "__main__":
    print(("command line arguments:\n\t%s" % sys.argv))
    main(sys.argv)
    print("exit successfully")