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#!/usr/bin/env python
from cogent.util.unit_test import TestCase, main
from qiime.make_library_id_lists import (get_ids, get_first_id)
"""Tests of the make_library_id_lists.py file.
"""
__author__ = "Rob Knight"
__copyright__ = "Copyright 2011, The QIIME Project"
#remember to add yourself if you make changes
__credits__ = ["Rob Knight"]
__license__ = "GPL"
__version__ = "1.4.0"
__maintainer__ = "Kyle Bittinger"
__email__ = "kylebittinger@gmail.com"
__status__ = "Release"
class TopLevelTests(TestCase):
"""Top-level tests of functions in make_library_id_lists.py"""
def test_get_ids(self):
"""get_ids should identify which ids are in which library"""
lines = """>S74_1 E86FECS01CEVAV orig_bc=ACATGTCACGTG new_bc=ACATGTCACGTG bc_diffs=0
CTCCTC
>Unassigned_2 E86FECS01EKKMF orig_bc=AGCGCTGATGTA new_bc=None bc_diffs=1
GGTGCCTCCCTCGC
>S80_3 E86FECS01EKKMF orig_bc=AGCGCTGATGTA new_bc=None bc_diffs=1
GGTGCCTCCCTCGC
>S80_4 E86FECS01CW66X orig_bc=AGTCCATAGCTG new_bc=AGTCCATAGCTG bc_diffs=0
GTCCTGGCAG""".splitlines()
result = get_ids(lines, 1)
self.assertEqual(dict(result), {'S74':['E86FECS01CEVAV'],'Unassigned':['E86FECS01EKKMF'],'S80':['E86FECS01EKKMF','E86FECS01CW66X']})
def test_get_first_id(self):
"""get_first_id should identify first id in fasta file"""
lines = """>S74_1 E86FECS01CEVAV orig_bc=ACATGTCACGTG new_bc=ACATGTCACGTG bc_diffs=0
CTCCTC
>Unassigned_2 E86FECS01EKKMF orig_bc=AGCGCTGATGTA new_bc=None bc_diffs=1
GGTGCCTCCCTCGC
>S80_3 E86FECS01EKKMF orig_bc=AGCGCTGATGTA new_bc=None bc_diffs=1
GGTGCCTCCCTCGC
>S80_4 E86FECS01CW66X orig_bc=AGTCCATAGCTG new_bc=AGTCCATAGCTG bc_diffs=0
GTCCTGGCAG""".splitlines()
self.assertEqual(get_first_id(lines), set(['S74_1','Unassigned_2','S80_3','S80_4']))
if __name__ == '__main__':
main()
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