You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
155 lines
5.8 KiB
155 lines
5.8 KiB
import unittest
|
|
from os import path
|
|
|
|
import array
|
|
import six
|
|
import struct
|
|
|
|
from zolfa.nd2reader.artificial import ArtificialND2
|
|
from zolfa.nd2reader.common import get_version, parse_version, parse_date, _add_to_metadata, _parse_unsigned_char, \
|
|
_parse_unsigned_int, _parse_unsigned_long, _parse_double, check_or_make_dir, _parse_string, _parse_char_array, \
|
|
get_from_dict_if_exists, read_chunk
|
|
from zolfa.nd2reader.exceptions import InvalidVersionError
|
|
|
|
|
|
class TestCommon(unittest.TestCase):
|
|
def setUp(self):
|
|
dir_path = path.dirname(path.realpath(__file__))
|
|
check_or_make_dir(path.join(dir_path, 'test_data/'))
|
|
self.test_file = path.join(dir_path, 'test_data/test.nd2')
|
|
|
|
def create_test_nd2(self):
|
|
with ArtificialND2(self.test_file) as artificial:
|
|
artificial.close()
|
|
|
|
def test_parse_version_2(self):
|
|
data = 'ND2 FILE SIGNATURE CHUNK NAME01!Ver2.2'
|
|
actual = parse_version(data)
|
|
expected = (2, 2)
|
|
self.assertTupleEqual(actual, expected)
|
|
|
|
def test_parse_version_3(self):
|
|
data = 'ND2 FILE SIGNATURE CHUNK NAME01!Ver3.0'
|
|
actual = parse_version(data)
|
|
expected = (3, 0)
|
|
self.assertTupleEqual(actual, expected)
|
|
|
|
def test_parse_version_invalid(self):
|
|
data = 'ND2 FILE SIGNATURE CHUNK NAME!Version2.2.3'
|
|
self.assertRaises(InvalidVersionError, parse_version, data)
|
|
|
|
def test_get_version_from_file(self):
|
|
self.create_test_nd2()
|
|
|
|
with open(self.test_file, 'rb') as fh:
|
|
version_tuple = get_version(fh)
|
|
self.assertTupleEqual(version_tuple, (3, 0))
|
|
|
|
def test_parse_date_24(self):
|
|
date_format = "%m/%d/%Y %H:%M:%S"
|
|
date = '02/13/2016 23:43:37'
|
|
textinfo = {six.b('TextInfoItem9'): six.b(date)}
|
|
result = parse_date(textinfo)
|
|
self.assertEqual(result.strftime(date_format), date)
|
|
|
|
def test_parse_date_12(self):
|
|
date_format = "%m/%d/%Y %I:%M:%S %p"
|
|
date = '02/13/2016 11:43:37 PM'
|
|
textinfo = {six.b('TextInfoItem9'): six.b(date)}
|
|
result = parse_date(textinfo)
|
|
self.assertEqual(result.strftime(date_format), date)
|
|
|
|
def test_parse_date_exception(self):
|
|
date = 'i am no date'
|
|
textinfo = {six.b('TextInfoItem9'): six.b(date)}
|
|
result = parse_date(textinfo)
|
|
self.assertIsNone(result)
|
|
|
|
def test_add_to_meta_simple(self):
|
|
metadata = {}
|
|
_add_to_metadata(metadata, 'test', 'value')
|
|
self.assertDictEqual(metadata, {'test': 'value'})
|
|
|
|
def test_add_to_meta_new_list(self):
|
|
metadata = {'test': 'value1'}
|
|
_add_to_metadata(metadata, 'test', 'value2')
|
|
self.assertDictEqual(metadata, {'test': ['value1', 'value2']})
|
|
|
|
def test_add_to_meta_existing_list(self):
|
|
metadata = {'test': ['value1', 'value2']}
|
|
_add_to_metadata(metadata, 'test', 'value3')
|
|
self.assertDictEqual(metadata, {'test': ['value1', 'value2', 'value3']})
|
|
|
|
@staticmethod
|
|
def _prepare_bin_stream(binary_format, *value):
|
|
file = six.BytesIO()
|
|
data = struct.pack(binary_format, *value)
|
|
file.write(data)
|
|
file.seek(0)
|
|
return file
|
|
|
|
def test_parse_functions(self):
|
|
file = self._prepare_bin_stream("B", 9)
|
|
self.assertEqual(_parse_unsigned_char(file), 9)
|
|
|
|
file = self._prepare_bin_stream("I", 333)
|
|
self.assertEqual(_parse_unsigned_int(file), 333)
|
|
|
|
file = self._prepare_bin_stream("Q", 7564332)
|
|
self.assertEqual(_parse_unsigned_long(file), 7564332)
|
|
|
|
file = self._prepare_bin_stream("d", 47.9)
|
|
self.assertEqual(_parse_double(file), 47.9)
|
|
|
|
test_string = 'colloid'
|
|
file = self._prepare_bin_stream("%ds" % len(test_string), six.b(test_string))
|
|
parsed = _parse_string(file)
|
|
self.assertEqual(parsed, six.b(test_string))
|
|
|
|
test_data = [1, 2, 3, 4, 5]
|
|
file = self._prepare_bin_stream("Q" + ''.join(['B'] * len(test_data)), len(test_data), *test_data)
|
|
parsed = _parse_char_array(file)
|
|
self.assertEqual(parsed, array.array('B', test_data))
|
|
|
|
def test_get_from_dict_if_exists(self):
|
|
test_dict = {
|
|
six.b('existing'): 'test',
|
|
'string': 'test2'
|
|
}
|
|
|
|
self.assertIsNone(get_from_dict_if_exists('nowhere', test_dict))
|
|
self.assertEqual(get_from_dict_if_exists('existing', test_dict), 'test')
|
|
self.assertEqual(get_from_dict_if_exists('string', test_dict, convert_key_to_binary=False), 'test2')
|
|
|
|
def test_read_chunk(self):
|
|
with ArtificialND2(self.test_file) as artificial:
|
|
fh = artificial.file_handle
|
|
chunk_location = artificial.locations['image_attributes'][0]
|
|
|
|
chunk_read = read_chunk(fh, chunk_location)
|
|
real_data = six.BytesIO(artificial.raw_text)
|
|
|
|
real_data.seek(chunk_location)
|
|
|
|
# The chunk metadata is always 16 bytes long
|
|
chunk_metadata = real_data.read(16)
|
|
header, relative_offset, data_length = struct.unpack("IIQ", chunk_metadata)
|
|
self.assertEquals(header, 0xabeceda)
|
|
|
|
# We start at the location of the chunk metadata, skip over the metadata, and then proceed to the
|
|
# start of the actual data field, which is at some arbitrary place after the metadata.
|
|
real_data.seek(chunk_location + 16 + relative_offset)
|
|
|
|
real_chunk = real_data.read(data_length)
|
|
|
|
self.assertEqual(real_chunk, chunk_read)
|
|
|
|
def test_read_chunk_fail_bad_header(self):
|
|
with ArtificialND2(self.test_file) as artificial:
|
|
fh = artificial.file_handle
|
|
chunk_location = artificial.locations['image_attributes'][0]
|
|
|
|
with self.assertRaises(ValueError) as context:
|
|
read_chunk(fh, chunk_location + 1)
|
|
|
|
self.assertEquals(str(context.exception), "The ND2 file seems to be corrupted.")
|