folder_structure.py
dbb5add19cbamaster

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')