def run(description):
parser = argparse.ArgumentParser(
description = description,
usage = 'fastaq reverse_complement <infile> <outfile>')
parser.add_argument('infile', help='Name of input file')
parser.add_argument('outfile', help='Name of output file')
options = parser.parse_args()
tasks.reverse_complement(options.infile, options.outfile)
def test_reverse_complement(self):
'''reverse_complement should correctly reverse complement each seq in a file'''
tmp = 'tmp.revcomp.fa'
tasks.reverse_complement(os.path.join(data_dir, 'sequences_test.fa'),
tmp)
self.assertTrue(
filecmp.cmp(os.path.join(data_dir, 'sequences_test_revcomp.fa'),
tmp))
os.unlink(tmp)
def test_reverse_complement(self):
'''reverse_complement should correctly reverse complement each seq in a file'''
tmp = 'tmp.revcomp.fa'
tasks.reverse_complement(os.path.join(data_dir, 'sequences_test.fa'), tmp)
self.assertTrue(filecmp.cmp(os.path.join(data_dir, 'sequences_test_revcomp.fa'), tmp))
os.unlink(tmp)
