Mercurial > repos > dfornika > snippy

comparison snippy_core_wrapper.py @ 18:9d8519bf7a40 draft

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planemo upload for repository https://github.com/tseemann/snippy commit 8eeaf87866e26e7b534a6fd8e9b0919b16596c08-dirty
author dfornika
date Tue, 22 Jan 2019 14:48:36 -0500
parents 412683e7a8fe
children
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17:412683e7a8fe 18:9d8519bf7a40
16 import argparse 16 import argparse
17 import os 17 import os
18 import subprocess 18 import subprocess
19 from shutil import copyfile 19 from shutil import copyfile
20 20
21
21 def main(): 22 def main():
22
23 23
24 parser = argparse.ArgumentParser() 24 parser = argparse.ArgumentParser()
25 parser.add_argument('-r', '--ref', help='Reference fasta', required=True) 25 parser.add_argument('-r', '--ref', help='Reference fasta', required=True)
26 parser.add_argument('-i', '--indirs', help='Comma-separated list of input datasets') 26 parser.add_argument('-i', '--indirs', help='Comma-separated list of input datasets')
27 args = parser.parse_args() 27 args = parser.parse_args()