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import sys
import csv
import utilities
import datastructure
import genotypes
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='"')
next(datafile)
delrowcount = 0
for row in datafile:
if len(row) == 0:
continue
genoname = row[0]
delrowcount += genotypes.delete(genoname, inbredsetid)
print(("deleted %d genotypes" % (delrowcount)))
if __name__ == "__main__":
print(("command line arguments:\n\t%s" % sys.argv))
main(sys.argv)
print("exit successfully")
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