MONAI/tests/data/test_init_reader.py at f1873ec0ee720af9902fcfa329cbc29fb93da7b8 · Project-MONAI/MONAI · GitHub

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# Copyright (c) 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.

from __future__ import annotations

import os
import tempfile
import unittest

import numpy as np

from monai.data import ITKReader, NibabelReader, NrrdReader, NumpyReader, PILReader, PydicomReader
from monai.transforms import LoadImage, LoadImaged
from tests.test_utils import SkipIfNoModule


class TestInitLoadImage(unittest.TestCase):
    def test_load_image(self):
        instance1 = LoadImage(image_only=False, dtype=None)
        instance2 = LoadImage(image_only=True, dtype=None)
        self.assertIsInstance(instance1, LoadImage)
        self.assertIsInstance(instance2, LoadImage)

        for r in ["NibabelReader", "PILReader", "ITKReader", "NumpyReader", "NrrdReader", "PydicomReader", None]:
            inst = LoadImaged("image", reader=r)
            self.assertIsInstance(inst, LoadImaged)

    @SkipIfNoModule("nibabel")
    @SkipIfNoModule("cupy")
    @SkipIfNoModule("kvikio")
    def test_load_image_to_gpu(self):
        for to_gpu in [True, False]:
            instance1 = LoadImage(reader="NibabelReader", to_gpu=to_gpu)
            self.assertIsInstance(instance1, LoadImage)

            instance2 = LoadImaged("image", reader="NibabelReader", to_gpu=to_gpu)
            self.assertIsInstance(instance2, LoadImaged)

    @SkipIfNoModule("itk")
    @SkipIfNoModule("nibabel")
    @SkipIfNoModule("PIL")
    @SkipIfNoModule("nrrd")
    @SkipIfNoModule("Pydicom")
    def test_readers(self):
        inst = ITKReader()
        self.assertIsInstance(inst, ITKReader)

        inst = NibabelReader()
        self.assertIsInstance(inst, NibabelReader)
        inst = NibabelReader(as_closest_canonical=True)
        self.assertIsInstance(inst, NibabelReader)

        inst = PydicomReader()
        self.assertIsInstance(inst, PydicomReader)

        inst = NumpyReader()
        self.assertIsInstance(inst, NumpyReader)
        inst = NumpyReader(npz_keys="test")
        self.assertIsInstance(inst, NumpyReader)

        inst = PILReader()
        self.assertIsInstance(inst, PILReader)

        inst = NrrdReader()
        self.assertIsInstance(inst, NrrdReader)

    @SkipIfNoModule("nibabel")
    @SkipIfNoModule("cupy")
    @SkipIfNoModule("kvikio")
    def test_readers_to_gpu(self):
        for to_gpu in [True, False]:
            inst = NibabelReader(to_gpu=to_gpu)
            self.assertIsInstance(inst, NibabelReader)

    @SkipIfNoModule("nibabel")
    def test_nibabel_reader_avoids_eager_c_order_copy(self):
        import nibabel as nib

        test_image = np.arange(2 * 3 * 4, dtype=np.int16).reshape(2, 3, 4)
        with tempfile.TemporaryDirectory() as tempdir:
            for suffix in (".nii", ".nii.gz"):
                with self.subTest(suffix=suffix):
                    filename = os.path.join(tempdir, f"test_image{suffix}")
                    nib.save(nib.Nifti1Image(test_image, np.eye(4)), filename)

                    reader = NibabelReader(mmap=False)
                    img = reader.read(filename)
                    data, _ = reader.get_data(img)

                    np.testing.assert_array_equal(data, test_image)
                    # The reader must not force an eager C-order copy; the native
                    # (F-order) layout from nibabel should be preserved here.
                    self.assertFalse(data.flags.c_contiguous)


if __name__ == "__main__":
    unittest.main()