"""
Positional arguments:
1. INPUT - file path to FASTA file
2. OUTPUT - file path of output PIR file
"""
import sys
FASTA = sys.argv[1]
PIR = sys.argv[2]

from modeller import *
e = environ()
a = alignment(e, file = FASTA, alignment_format = 'FASTA')
a.write(file = PIR, alignment_format = 'PIR')
