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111 lines
4.4 KiB
111 lines
4.4 KiB
"""
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These tests require that you have a specific ND2 file created by the developer of nd2reader. You will never need to
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run them unless you're Jim Rybarski.
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"""
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from nd2reader import Nd2
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from datetime import datetime
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import unittest
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class FunctionalTests(unittest.TestCase):
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def setUp(self):
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self.nd2 = Nd2("/var/nd2s/FYLM-141111-001.nd2")
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def tearDown(self):
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self.nd2.close()
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def test_shape(self):
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self.assertEqual(self.nd2.height, 1280)
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self.assertEqual(self.nd2.width, 800)
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def test_date(self):
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self.assertEqual(self.nd2.date, datetime(2014, 11, 11, 15, 59, 19))
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# def test_length(self):
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# # This will fail until we address issue #59
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# self.assertEqual(len(self.nd2), 17808)
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def test_frames(self):
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self.assertEqual(len(self.nd2.frames), 636)
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def test_fovs(self):
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self.assertEqual(len(self.nd2.fields_of_view), 8)
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def test_channels(self):
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self.assertTupleEqual(tuple(sorted(self.nd2.channels)), ('BF', 'GFP'))
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def test_z_levels(self):
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self.assertTupleEqual(tuple(self.nd2.z_levels), (0, 1, 2))
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def test_image(self):
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image = self.nd2[14]
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self.assertEqual(image.field_of_view, 2)
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self.assertEqual(image.frame_number, 0)
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self.assertAlmostEqual(image.timestamp, 19.0340758)
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self.assertEqual(image.channel, 'BF')
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self.assertEqual(image.z_level, 1)
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self.assertEqual(image.height, self.nd2.height)
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self.assertEqual(image.width, self.nd2.width)
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def test_last_image(self):
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image = self.nd2[30526]
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self.assertEqual(image.frame_number, 635)
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def test_bad_image(self):
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image = self.nd2[13]
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self.assertIsNone(image)
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def test_iteration(self):
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images = [image for image in self.nd2[:10]]
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self.assertEqual(len(images), 10)
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def test_iteration_step(self):
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images = [image for image in self.nd2[:10:2]]
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self.assertEqual(len(images), 5)
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def test_iteration_backwards(self):
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images = [image for image in self.nd2[:10:-1]]
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self.assertEqual(len(images), 10)
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def test_get_image_by_attribute_ok(self):
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image = self.nd2.get_image(4, 0, "GFP", 1)
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self.assertIsNotNone(image)
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image = self.nd2.get_image(4, 0, "BF", 0)
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self.assertIsNotNone(image)
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image = self.nd2.get_image(4, 0, "BF", 1)
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self.assertIsNotNone(image)
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def test_images(self):
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self.assertTupleEqual((self.nd2[0].z_level, self.nd2[0].channel), (0, 'BF'))
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self.assertIsNone(self.nd2[1])
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self.assertTupleEqual((self.nd2[2].z_level, self.nd2[2].channel), (1, 'BF'))
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self.assertTupleEqual((self.nd2[3].z_level, self.nd2[3].channel), (1, 'GFP'))
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self.assertTupleEqual((self.nd2[4].z_level, self.nd2[4].channel), (2, 'BF'))
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self.assertIsNone(self.nd2[5])
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self.assertTupleEqual((self.nd2[6].z_level, self.nd2[6].channel), (0, 'BF'))
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self.assertIsNone(self.nd2[7])
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self.assertTupleEqual((self.nd2[8].z_level, self.nd2[8].channel), (1, 'BF'))
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self.assertTupleEqual((self.nd2[9].z_level, self.nd2[9].channel), (1, 'GFP'))
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self.assertTupleEqual((self.nd2[10].z_level, self.nd2[10].channel), (2, 'BF'))
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self.assertIsNone(self.nd2[11])
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self.assertTupleEqual((self.nd2[12].z_level, self.nd2[12].channel), (0, 'BF'))
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self.assertIsNone(self.nd2[13])
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self.assertTupleEqual((self.nd2[14].z_level, self.nd2[14].channel), (1, 'BF'))
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self.assertTupleEqual((self.nd2[15].z_level, self.nd2[15].channel), (1, 'GFP'))
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self.assertTupleEqual((self.nd2[16].z_level, self.nd2[16].channel), (2, 'BF'))
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self.assertIsNone(self.nd2[17])
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self.assertTupleEqual((self.nd2[18].z_level, self.nd2[18].channel), (0, 'BF'))
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self.assertIsNone(self.nd2[19])
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self.assertIsNone(self.nd2[47])
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self.assertTupleEqual((self.nd2[48].z_level, self.nd2[48].channel), (0, 'BF'))
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self.assertIsNone(self.nd2[49])
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self.assertTupleEqual((self.nd2[50].z_level, self.nd2[50].channel), (1, 'BF'))
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self.assertIsNone(self.nd2[51])
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self.assertTupleEqual((self.nd2[52].z_level, self.nd2[52].channel), (2, 'BF'))
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self.assertIsNone(self.nd2[53])
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self.assertTupleEqual((self.nd2[54].z_level, self.nd2[54].channel), (0, 'BF'))
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def test_get_image_by_attribute_none(self):
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image = self.nd2.get_image(4, 0, "GFP", 0)
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self.assertIsNone(image)
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