code: # 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 os
  import unittest
  from unittest import skipUnless
  
  import numpy as np
  from numpy.testing import assert_array_equal
  from parameterized import parameterized
  
  from monai.apps.pathology.data import PatchWSIDataset
  from monai.apps.utils import download_url
  from monai.utils import optional_import
  
  _, has_cim = optional_import("cucim")
  _, has_osl = optional_import("openslide")
  
  FILE_URL = "http://openslide.cs.cmu.edu/download/openslide-testdata/Generic-TIFF/CMU-1.tiff"
  FILE_PATH = os.path.join(os.path.dirname(__file__), "testing_data", "temp_" + os.path.basename(FILE_URL))
  
  TEST_CASE_0 = [
      {
          "data": [
              {"image": FILE_PATH, "location": [0, 0], "label": [1]},
          ],
          "region_size": (1, 1),
          "grid_shape": (1, 1),
          "patch_size": 1,
          "image_reader_name": "cuCIM",
      },
      [
          {"image": np.array([[[239]], [[239]], [[239]]], dtype=np.uint8), "label": np.array([[[1]]])},
      ],
  ]
  
  TEST_CASE_1 = [
      {
          "data": [{"image": FILE_PATH, "location": [10004, 20004], "label": [0, 0, 0, 1]}],
          "region_size": (8, 8),
          "grid_shape": (2, 2),
          "patch_size": 1,
          "image_reader_name": "cuCIM",
      },
      [
          {"image": np.array([[[247]], [[245]], [[248]]], dtype=np.uint8), "label": np.array([[[0]]])},
          {"image": np.array([[[245]], [[247]], [[244]]], dtype=np.uint8), "label": np.array([[[0]]])},
          {"image": np.array([[[246]], [[246]], [[246]]], dtype=np.uint8), "label": np.array([[[0]]])},
          {"image": np.array([[[246]], [[246]], [[246]]], dtype=np.uint8), "label": np.array([[[1]]])},
      ],
  ]
  
  TEST_CASE_2 = [
      {
          "data": [
              {"image": FILE_PATH, "location": [0, 0], "label": [1]},
          ],
          "region_size": 1,
          "grid_shape": 1,
          "patch_size": 1,
          "image_reader_name": "cuCIM",
      },
      [
          {"image": np.array([[[239]], [[239]], [[239]]], dtype=np.uint8), "label": np.array([[[1]]])},
      ],
  ]
  
  TEST_CASE_3 = [
      {
          "data": [
              {"image": FILE_PATH, "location": [0, 0], "label": [[[0, 1], [1, 0]]]},
          ],
          "region_size": 1,
          "grid_shape": 1,
          "patch_size": 1,
          "image_reader_name": "cuCIM",
      },
      [
          {"image": np.array([[[239]], [[239]], [[239]]], dtype=np.uint8), "label": np.array([[[0, 1], [1, 0]]])},
      ],
  ]
  
  TEST_CASE_OPENSLIDE_0 = [
      {
          "data": [
              {"image": FILE_PATH, "location": [0, 0], "label": [1]},
          ],
          "region_size": (1, 1),
          "grid_shape": (1, 1),
          "patch_size": 1,
          "image_reader_name": "OpenSlide",
      },
      [
          {"image": np.array([[[239]], [[239]], [[239]]], dtype=np.uint8), "label": np.array([[[1]]])},
      ],
  ]
  
  TEST_CASE_OPENSLIDE_1 = [
      {
          "data": [{"image": FILE_PATH, "location": [10004, 20004], "label": [0, 0, 0, 1]}],
          "region_size": (8, 8),
          "grid_shape": (2, 2),
          "patch_size": 1,
          "image_reader_name": "OpenSlide",
      },
      [
          {"image": np.array([[[247]], [[245]], [[248]]], dtype=np.uint8), "label": np.array([[[0]]])},
          {"image": np.array([[[245]], [[247]], [[244]]], dtype=np.uint8), "label": np.array([[[0]]])},
          {"image": np.array([[[246]], [[246]], [[246]]], dtype=np.uint8), "label": np.array([[[0]]])},
          {"image": np.array([[[246]], [[246]], [[246]]], dtype=np.uint8), "label": np.array([[[1]]])},
      ],
  ]
  
  
  class TestPatchWSIDataset(unittest.TestCase):
      def setUp(self):
          download_url(FILE_URL, FILE_PATH, "5a3cfd4fd725c50578ddb80b517b759f")
  
      @parameterized.expand(
          [
              TEST_CASE_0,
              TEST_CASE_1,
              TEST_CASE_2,
              TEST_CASE_3,
          ]
      )
      @skipUnless(has_cim, "Requires CuCIM")
      def test_read_patches_cucim(self, input_parameters, expected):
          dataset = PatchWSIDataset(**input_parameters)
          samples = dataset[0]
          for i in range(len(samples)):
              self.assertTupleEqual(samples[i]["label"].shape, expected[i]["label"].shape)
              self.assertTupleEqual(samples[i]["image"].shape, expected[i]["image"].shape)
              self.assertIsNone(assert_array_equal(samples[i]["label"], expected[i]["label"]))
              self.assertIsNone(assert_array_equal(samples[i]["image"], expected[i]["image"]))
  
      @parameterized.expand(
          [
              TEST_CASE_OPENSLIDE_0,
              TEST_CASE_OPENSLIDE_1,
          ]
      )
      @skipUnless(has_osl, "Requires OpenSlide")
      def test_read_patches_openslide(self, input_parameters, expected):
          dataset = PatchWSIDataset(**input_parameters)
          samples = dataset[0]
          for i in range(len(samples)):
              self.assertTupleEqual(samples[i]["label"].shape, expected[i]["label"].shape)
              self.assertTupleEqual(samples[i]["image"].shape, expected[i]["image"].shape)
              self.assertIsNone(assert_array_equal(samples[i]["label"], expected[i]["label"]))
              self.assertIsNone(assert_array_equal(samples[i]["image"], expected[i]["image"]))
  
  
  if __name__ == "__main__":
      unittest.main()
  
apis: numpy.array numpy.testing.assert_array_equal