1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
|
import subprocess
import os
import sys
import unittest
TEST_DATA = os.path.join(os.path.dirname(__file__), "..", "..", "test_data")
class TestHDFRepack(unittest.TestCase):
def test_simple_range(self):
source_file = os.path.join(TEST_DATA, "multi_fast5_zip.fast5")
dest_file_vbz = os.path.join(TEST_DATA, "multi_fast5_zip.fast5.repacked_vbz")
dest_file_none = os.path.join(TEST_DATA, "multi_fast5_zip.fast5.repacked_none")
result = subprocess.run([ 'h5repack', '-f', 'NONE', source_file, dest_file_none ],
stdout=sys.stdout,
stderr=sys.stderr
)
self.assertEqual(result.returncode, 0)
result = subprocess.run([ 'h5repack', '-f', 'UD=32020,5,0,0,2,1,1', source_file, dest_file_vbz ],
stdout=sys.stdout,
stderr=sys.stderr
)
self.assertEqual(result.returncode, 0)
uncompressed_bytes = os.stat(dest_file_none).st_size
source_bytes = os.stat(source_file).st_size
vbz_bytes = os.stat(dest_file_vbz).st_size
print("Uncompressed file is %s bytes"
% uncompressed_bytes)
print("Source file is %s bytes (%.0f%% of uncompressed)"
% (source_bytes, (source_bytes/uncompressed_bytes*100)))
print("vbz file is %s bytes (%.0f%% of uncompressed, %.0f%% of source)"
% (vbz_bytes, (vbz_bytes/uncompressed_bytes*100), (vbz_bytes/source_bytes*100)))
if __name__ == '__main__':
unittest.main()
|
