added unit tests

Signed-off-by: Neha Srivathsa <[email protected]>

Author: nsrivathsa

tests/test_pathology_transforms.py

@@ -0,0 +1,74 @@
+# Copyright 2020 - 2021 MONAI Consortium
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#     http://www.apache.org/licenses/LICENSE-2.0
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+
+import unittest
+from typing import TYPE_CHECKING
+
+from parameterized import parameterized
+
+from monai.apps.pathology.transforms import ExtractStainsMacenko
+from monai.utils import exact_version, optional_import
+
+if TYPE_CHECKING:
+    import cupy as cp
+else:
+    cp, _ = optional_import("cupy", "8.6.0", exact_version)
+
+# input pixels are all transparent and below the beta absorbance threshold
+EXTRACT_STAINS_TEST_CASE_1 = [
+    cp.zeros((3, 2, 3)),
+    cp.array([[0.0, 0.0], [0.70710678, 0.70710678], [0.70710678, 0.70710678]]),
+]
+
+# input pixels are all the same, but above beta absorbance threshold
+EXTRACT_STAINS_TEST_CASE_2 = [
+    cp.full((3, 2, 3), 200),
+    cp.array([[0.57735027, 0.57735027], [0.57735027, 0.57735027], [0.57735027, 0.57735027]]),
+]
+
+# input pixels are all transparent and below the beta absorbance threshold
+NORMALIZE_STAINS_TEST_CASE_1 = [
+    {},
+    cp.zeros((3, 2, 3)),
+    cp.array([[[63, 25, 60], [63, 25, 60]], [[63, 25, 60], [63, 25, 60]], [[63, 25, 60], [63, 25, 60]]]),
+]
+
+# input pixels are all the same, but above beta absorbance threshold
+NORMALIZE_STAINS_TEST_CASE_2 = [
+    {},
+    cp.full((3, 2, 3), 200),
+    cp.array([[[63, 25, 60], [63, 25, 60]], [[63, 25, 60], [63, 25, 60]], [[63, 25, 60], [63, 25, 60]]]),
+]
+
+# with a custom target_he, which is the same as the image's stain matrix
+NORMALIZE_STAINS_TEST_CASE_3 = [
+    {"target_he": cp.full((3, 2), 0.57735027)},
+    cp.full((3, 2, 3), 200),
+    cp.full((3, 2, 3), 42),
+]
+
+
+class TestExtractStainsMacenko(unittest.TestCase):
+    @parameterized.expand([EXTRACT_STAINS_TEST_CASE_1, EXTRACT_STAINS_TEST_CASE_2])
+    def test_value(self, image, expected_data):
+        result = ExtractStainsMacenko()(image)
+        cp.testing.assert_allclose(result, expected_data)
+
+
+class TestNormalizeStainsMacenko(unittest.TestCase):
+    @parameterized.expand([NORMALIZE_STAINS_TEST_CASE_1, NORMALIZE_STAINS_TEST_CASE_2, NORMALIZE_STAINS_TEST_CASE_3])
+    def test_value(self, argments, image, expected_data):
+        result = NormalizeStainsMacenko(**argments)(image)
+        cp.testing.assert_allclose(result, expected_data)
+
+
+if __name__ == "__main__":
+    unittest.main()