def test_count_sequences(self):
'''Check that count_sequences does as expected'''
self.assertEqual(
2,
tasks.count_sequences(
os.path.join(data_dir, 'sequences_test_good_file.fq')))
self.assertEqual(
4,
tasks.count_sequences(os.path.join(data_dir, 'sequences_test.fa')))
self.assertEqual(
0,
tasks.count_sequences(
os.path.join(data_dir, 'sequences_test_empty_file')))
def run(description):
parser = argparse.ArgumentParser(
description = 'Prints the number of sequences in input file to stdout',
usage = 'fastaq count_sequences <infile>')
parser.add_argument('infile', help='Name of input file')
options = parser.parse_args()
print(tasks.count_sequences(options.infile))
def test_count_sequences(self):
'''Check that count_sequences does as expected'''
self.assertEqual(2, tasks.count_sequences(os.path.join(data_dir, 'sequences_test_good_file.fq')))
self.assertEqual(4, tasks.count_sequences(os.path.join(data_dir, 'sequences_test.fa')))
self.assertEqual(0, tasks.count_sequences(os.path.join(data_dir, 'sequences_test_empty_file')))
