class ImgDataUnitTest(unittest.TestCase): def setUp(self): self.img_data = ImgData() self.img_data.load('Data/Mg2SiO4_ambient_001.tif') def perform_transformations_tests(self): self.assertEqual(np.sum(np.absolute(self.img_data.get_img_data())), 0) self.img_data.rotate_img_m90() self.assertEqual(np.sum(np.absolute(self.img_data.get_img_data())), 0) self.img_data.flip_img_horizontally() self.assertEqual(np.sum(np.absolute(self.img_data.get_img_data())), 0) self.img_data.rotate_img_p90() self.assertEqual(np.sum(np.absolute(self.img_data.get_img_data())), 0) self.img_data.flip_img_vertically() self.assertEqual(np.sum(np.absolute(self.img_data.get_img_data())), 0) self.img_data.reset_img_transformations() self.assertEqual(np.sum(np.absolute(self.img_data.get_img_data())), 0) def test_flipping_images(self): original_image = np.copy(self.img_data._img_data) self.img_data.flip_img_vertically() self.assertTrue(np.array_equal(self.img_data._img_data, np.flipud(original_image))) def test_simple_background_subtraction(self): self.first_image = np.copy(self.img_data.get_img_data()) self.img_data.load_next_file() self.second_image = np.copy(self.img_data.get_img_data()) self.img_data.load('Data/Mg2SiO4_ambient_001.tif') self.img_data.load_background('Data/Mg2SiO4_ambient_002.tif') self.assertFalse(np.array_equal(self.first_image, self.img_data.get_img_data())) self.img_data.load_next_file() self.assertEqual(np.sum(self.img_data.get_img_data()), 0) def test_background_subtraction_with_supersampling(self): self.img_data.load_background('Data/Mg2SiO4_ambient_002.tif') self.img_data.set_supersampling(2) self.img_data.get_img_data() self.img_data.set_supersampling(3) self.img_data.get_img_data() self.img_data.load_next_file() self.img_data.get_img_data() def test_background_subtraction_with_transformation(self): self.img_data.load_background('Data/Mg2SiO4_ambient_002.tif') original_img = np.copy(self.img_data._img_data) original_background = np.copy(self.img_data._background_data) self.assertNotEqual(self.img_data._background_data, None) self.assertFalse(np.array_equal(self.img_data.img_data, self.img_data._img_data)) original_img_background_subtracted = np.copy(self.img_data.get_img_data()) self.assertTrue(np.array_equal(original_img_background_subtracted, original_img-original_background)) ### now comes the main process - flipping the image self.img_data.flip_img_vertically() flipped_img = np.copy(self.img_data._img_data) self.assertTrue(np.array_equal(np.flipud(original_img), flipped_img)) flipped_background = np.copy(self.img_data._background_data) self.assertTrue(np.array_equal(np.flipud(original_background), flipped_background)) flipped_img_background_subtracted = np.copy(self.img_data.get_img_data()) self.assertTrue(np.array_equal(flipped_img_background_subtracted, flipped_img-flipped_background)) self.assertTrue(np.array_equal(np.flipud(original_img_background_subtracted), flipped_img_background_subtracted)) self.assertEqual(np.sum(np.flipud(original_img_background_subtracted)-flipped_img_background_subtracted), 0) self.img_data.load('Data/Mg2SiO4_ambient_002.tif') self.perform_transformations_tests() def test_background_subtraction_with_supersampling_and_image_transformation(self): self.img_data.load_background('Data/Mg2SiO4_ambient_002.tif') self.img_data.load('Data/Mg2SiO4_ambient_002.tif') self.img_data.set_supersampling(2) self.assertEqual(self.img_data.get_img_data().shape, (4096, 4096)) self.perform_transformations_tests() self.img_data.set_supersampling(3) self.assertEqual(self.img_data.get_img_data().shape, (6144, 6144)) self.perform_transformations_tests() self.img_data.load('Data/Mg2SiO4_ambient_002.tif') self.assertEqual(self.img_data.get_img_data().shape, (6144, 6144)) self.perform_transformations_tests() def test_background_scaling_and_offset(self): self.img_data.load_background('Data/Mg2SiO4_ambient_002.tif') #assure that everything is correct before self.assertTrue(np.array_equal(self.img_data.get_img_data(), self.img_data._img_data-self.img_data._background_data)) #set scaling and see difference self.img_data.set_background_scaling(2.4) self.assertTrue(np.array_equal(self.img_data.get_img_data(), self.img_data._img_data-2.4*self.img_data._background_data)) #set offset and see the difference self.img_data.set_background_scaling(1.0) self.img_data.set_background_offset(100.0) self.assertTrue(np.array_equal(self.img_data.img_data, self.img_data._img_data-(self.img_data._background_data+100.0))) #use offset and scaling combined self.img_data.set_background_scaling(2.3) self.img_data.set_background_offset(100.0) self.assertTrue(np.array_equal(self.img_data.img_data, self.img_data._img_data-(2.3*self.img_data._background_data+100))) def test_background_with_different_shape(self): self.img_data.load_background('Data/CeO2_Pilatus1M.tif') self.assertEqual(self.img_data._background_data, None) self.img_data.load_background('Data/Mg2SiO4_ambient_002.tif') self.assertTrue(self.img_data._background_data is not None) self.img_data.load('Data/CeO2_Pilatus1M.tif') self.assertEqual(self.img_data._background_data, None) def test_absorption_correction_with_supersampling(self): original_image = np.copy(self.img_data.get_img_data()) dummy_correction = DummyCorrection(self.img_data.get_img_data().shape, 0.6) self.img_data.add_img_correction(dummy_correction, "Dummy 1") self.assertAlmostEqual(np.sum(original_image)/0.6, np.sum(self.img_data.get_img_data()), places=4) self.img_data.set_supersampling(2) self.img_data.get_img_data() def test_absorption_correction_with_different_image_sizes(self): dummy_correction = DummyCorrection(self.img_data.get_img_data().shape, 0.4) # self.img_data.set_absorption_correction(np.ones(self.img_data._img_data.shape)*0.4) self.img_data.add_img_correction(dummy_correction, "Dummy 1") self.assertTrue(self.img_data._img_corrections.has_items()) self.img_data.load('Data/CeO2_Pilatus1M.tif') self.assertFalse(self.img_data.has_corrections()) def test_adding_several_absorption_corrections(self): original_image = np.copy(self.img_data.get_img_data()) img_shape = original_image.shape self.img_data.add_img_correction(DummyCorrection(img_shape, 0.4)) self.img_data.add_img_correction(DummyCorrection(img_shape, 3)) self.img_data.add_img_correction(DummyCorrection(img_shape, 5)) self.assertTrue(np.sum(original_image)/(0.5*3*5), np.sum(self.img_data.get_img_data())) self.img_data.delete_img_correction(1) self.assertTrue(np.sum(original_image)/(0.5*5), np.sum(self.img_data.get_img_data())) def test_saving_data(self): self.img_data.load('Data/Mg2SiO4_ambient_001.tif') self.img_data.save('Data/TestSaving.tif') first_img_array = np.copy(self.img_data._img_data) self.img_data.load('Data/TestSaving.tif') self.assertTrue(np.array_equal(first_img_array, self.img_data._img_data))