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from __future__ import annotations
class Test2d:
def setup_class(self):
from dials.algorithms.image.connected_components import LabelImageStack2d
self.size = (500, 500)
self.label_images = LabelImageStack2d(self.size)
from scitbx.array_family import flex
self.data_list = []
self.mask_list = []
for i in range(10):
data = flex.random_int_gaussian_distribution(
self.size[0] * self.size[1], 100, 10
)
data.reshape(flex.grid(self.size))
mask = flex.random_bool(self.size[0] * self.size[1], 0.1)
mask.reshape(flex.grid(self.size))
self.data_list.append(data)
self.mask_list.append(mask)
for i in range(10):
self.label_images.add_image(self.data_list[i], self.mask_list[i])
self.labels = self.label_images.labels()
self.coords = self.label_images.coords()
self.values = list(self.label_images.values())
assert len(self.labels) > 0
assert len(self.labels) == len(self.coords)
assert len(self.labels) == len(self.values)
def test_coords_are_valid(self):
# Ensure that the values are all ok and in the right order
vi = 0
for k in range(10):
ind = 0
for j in range(self.size[0]):
for i in range(self.size[1]):
m = self.mask_list[k][ind]
if m:
c1 = (k, j, i)
c2 = self.coords[vi]
vi += 1
assert c1 == c2
ind += 1
def test_values_are_valid(self):
# Ensure that the values are all ok and in the right order
vi = 0
for k in range(10):
for d, m in zip(self.data_list[k], self.mask_list[k]):
if m:
v1 = d
v2 = self.values[vi]
vi += 1
assert v1 == v2
def test_labels_are_valid(self):
from scitbx.array_family import flex
# Create a map of labels
label_map = flex.int(flex.grid(10, self.size[0], self.size[1]))
for c, l in zip(self.coords, self.labels):
assert c[0] >= 0 and c[0] < 10
assert c[1] >= 0 and c[1] < self.size[0]
assert c[2] >= 0 and c[2] < self.size[1]
label_map[c] = l
# Ensure all labels are correct
vi = 0
for k in range(10):
for j in range(self.size[0]):
for i in range(self.size[1]):
if self.mask_list[k][j, i]:
l1 = self.labels[vi]
if k > 0 and self.mask_list[k - 1][j, i]:
l2 = label_map[k - 1, j, i]
assert l2 != l1
if j > 0 and self.mask_list[k][j - 1, i]:
l2 = label_map[k, j - 1, i]
assert l2 == l1
if i > 0 and self.mask_list[k][j, i - 1]:
l2 = label_map[k, j, i - 1]
assert l2 == l1
vi += 1
class Test3d:
def setup_class(self):
from dials.algorithms.image.connected_components import LabelImageStack3d
self.size = (500, 500)
self.label_images = LabelImageStack3d(self.size)
from scitbx.array_family import flex
self.data_list = []
self.mask_list = []
for i in range(10):
data = flex.random_int_gaussian_distribution(
self.size[0] * self.size[1], 100, 10
)
data.reshape(flex.grid(self.size))
mask = flex.random_bool(self.size[0] * self.size[1], 0.1)
mask.reshape(flex.grid(self.size))
self.data_list.append(data)
self.mask_list.append(mask)
for i in range(10):
self.label_images.add_image(self.data_list[i], self.mask_list[i])
self.labels = self.label_images.labels()
self.coords = self.label_images.coords()
self.values = list(self.label_images.values())
assert len(self.labels) > 0
assert len(self.labels) == len(self.coords)
assert len(self.labels) == len(self.values)
def test_coords_are_valid(self):
# Ensure that the values are all ok and in the right order
vi = 0
for k in range(10):
ind = 0
for j in range(self.size[0]):
for i in range(self.size[1]):
m = self.mask_list[k][ind]
if m:
c1 = (k, j, i)
c2 = self.coords[vi]
vi += 1
assert c1 == c2
ind += 1
def test_values_are_valid(self):
# Ensure that the values are all ok and in the right order
vi = 0
for k in range(10):
for d, m in zip(self.data_list[k], self.mask_list[k]):
if m:
v1 = d
v2 = self.values[vi]
vi += 1
assert v1 == v2
def test_labels_are_valid(self):
from scitbx.array_family import flex
# Create a map of labels
label_map = flex.int(flex.grid(10, self.size[0], self.size[1]))
for c, l in zip(self.coords, self.labels):
label_map[c] = l
# Ensure all labels are correct
vi = 0
for k in range(10):
for j in range(self.size[0]):
for i in range(self.size[1]):
if self.mask_list[k][j, i]:
l1 = self.labels[vi]
if k > 0 and self.mask_list[k - 1][j, i]:
l2 = label_map[k - 1, j, i]
assert l2 == l1
if j > 0 and self.mask_list[k][j - 1, i]:
l2 = label_map[k, j - 1, i]
assert l2 == l1
if i > 0 and self.mask_list[k][j, i - 1]:
l2 = label_map[k, j, i - 1]
assert l2 == l1
vi += 1
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