def test_01_01_negative_log_otsu(self):
'''regression test of img-1466'''
r = np.random.RandomState()
r.seed(11)
img = r.uniform(size=(10,10))
img[0,0] = -1
unmasked = T.get_otsu_threshold(img)
masked = T.get_otsu_threshold(img, img >= 0)
self.assertEqual(unmasked, masked)
def test_01_01_negative_log_otsu(self):
'''regression test of img-1466'''
r = np.random.RandomState()
r.seed(11)
img = r.uniform(size=(10,10))
img[0,0] = -1
unmasked = T.get_otsu_threshold(img)
masked = T.get_otsu_threshold(img, img >= 0)
self.assertEqual(unmasked, masked)
def test_04_06_per_object(self):
'''Test that per-object thresholding works'''
np.random.seed(0)
image = np.random.uniform(size=(20,20)) * .5
labels = np.ones((20,20),int)
labels[10:,:] *= 2
image[labels==2] *= 2
expected=image > T.get_otsu_threshold(image[labels==1])
expected[labels==2] = image[labels==2] > T.get_otsu_threshold(image[labels==2])
workspace, module = self.make_workspace(image)
objects = cpo.Objects()
objects.segmented = labels
workspace.object_set.add_objects(objects,"HelloKitty")
module.binary.value = A.BINARY
module.threshold_method.value = T.TM_OTSU_PER_OBJECT
module.enclosing_objects_name.value = "HelloKitty"
module.run(workspace)
output = workspace.image_set.get_image(OUTPUT_IMAGE_NAME)
self.assertTrue(np.all(output.pixel_data == expected))
def test_04_06_per_object(self):
'''Test that per-object thresholding works'''
np.random.seed(0)
image = np.random.uniform(size=(20,20)) * .5
labels = np.ones((20,20),int)
labels[10:,:] *= 2
image[labels==2] *= 2
expected=image > T.get_otsu_threshold(image[labels==1])
expected[labels==2] = image[labels==2] > T.get_otsu_threshold(image[labels==2])
workspace, module = self.make_workspace(image)
objects = cpo.Objects()
objects.segmented = labels
workspace.object_set.add_objects(objects,"HelloKitty")
module.binary.value = A.BINARY
module.threshold_method.value = T.TM_OTSU_PER_OBJECT
module.enclosing_objects_name.value = "HelloKitty"
module.run(workspace)
output = workspace.image_set.get_image(OUTPUT_IMAGE_NAME)
self.assertTrue(np.all(output.pixel_data == expected))
def test_04_02_binary_global(self):
'''Test a binary threshold with Otsu global method'''
np.random.seed(0)
image = np.random.uniform(size=(20,20))
threshold = T.get_otsu_threshold(image)
expected = image > threshold
workspace, module = self.make_workspace(image)
module.binary.value = A.BINARY
module.threshold_method.value = T.TM_OTSU_GLOBAL
module.run(workspace)
output = workspace.image_set.get_image(OUTPUT_IMAGE_NAME)
self.assertTrue(np.all(output.pixel_data == expected))
def test_04_02_binary_global(self):
'''Test a binary threshold with Otsu global method'''
np.random.seed(0)
image = np.random.uniform(size=(20, 20))
threshold = T.get_otsu_threshold(image)
expected = image > threshold
workspace, module = self.make_workspace(image)
module.binary.value = A.BINARY
module.threshold_method.value = T.TM_OTSU_GLOBAL
module.run(workspace)
output = workspace.image_set.get_image(OUTPUT_IMAGE_NAME)
self.assertTrue(np.all(output.pixel_data == expected))
def test_04_03_binary_correction(self):
'''Test a binary threshold with a correction factor'''
np.random.seed(0)
image = np.random.uniform(size=(20, 20))
threshold = T.get_otsu_threshold(image) * .5
expected = image > threshold
workspace, module = self.make_workspace(image)
module.binary.value = A.BINARY
module.threshold_scope.value = I.TS_GLOBAL
module.threshold_method.value = T.TM_OTSU
module.threshold_correction_factor.value = .5
module.run(workspace)
output = workspace.image_set.get_image(OUTPUT_IMAGE_NAME)
self.assertTrue(np.all(output.pixel_data == expected))
def test_04_03_binary_correction(self):
'''Test a binary threshold with a correction factor'''
np.random.seed(0)
image = np.random.uniform(size=(20,20))
threshold = T.get_otsu_threshold(image) *.5
expected = image > threshold
workspace, module = self.make_workspace(image)
module.binary.value = A.BINARY
module.threshold_scope.value = I.TS_GLOBAL
module.threshold_method.value = T.TM_OTSU
module.threshold_correction_factor.value = .5
module.run(workspace)
output = workspace.image_set.get_image(OUTPUT_IMAGE_NAME)
self.assertTrue(np.all(output.pixel_data == expected))
def test_01_00_nothing(self):
result = T.get_otsu_threshold(-np.ones((10,10)))
def test_01_00_nothing(self):
result = T.get_otsu_threshold(-np.ones((10,10)))