folder_structure.py
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	#!/usr/bin/env python

	import sys
	import os

	if __name__=='__main__':
	helpmess="""Usage:
	folder_structure species.txt

	Creates a subfolder for each species and the corresponding reference within.
	"""
	# Inputs
	if len(sys.argv)<2:
	print(helpmess)
	sys.exit(0)
	else:
	infile=os.path.realpath(sys.argv[1])

	with open(infile, 'r') as f:
	for line in f:
	# separate the elements
	words = line.strip().split()

	species = ('./' + '_'.join(words[0:2]))
	ref = (species + '/' + '_'.join(words[2:]) + '.txt')

	if not os.path.exists(species):
	os.mkdir(species)
	os.chown(species, 1000, 1000)

	with open(ref, 'w') as o:
	o.write('original description')