def test_zarr(single_tiff):
image_files = single_tiff * 3
images = io.magic_read(image_files)
with TemporaryDirectory(suffix='.zarr') as fout:
images.to_zarr(fout)
images_in = io.magic_read([fout])
# Note: due to lazy loading, the next line needs to happen within
# the context manager. Alternatively, we could convert to NumPy here.
np.testing.assert_array_equal(images, images_in)
def test_irregular_images(irregular_images):
image_files = irregular_images
# Ideally, this would work "magically" with dask and irregular images,
# but there is no foolproof way to do this without reading in all the
# files. We need to be able to inspect the file shape without reading
# it in first, then we can automatically turn stacking off when shapes
# are irregular (and create proper dask arrays)
images = io.magic_read(image_files, use_dask=False, stack=False)
assert isinstance(images, list)
assert len(images) == 2
assert tuple(image.shape for image in images) == ((512, 512), (303, 384))
def test_single_filename(single_tiff):
image_files = single_tiff[0]
images = io.magic_read(image_files)
assert images.shape == (2, 15, 10)
def test_many_tiffs(single_tiff):
image_files = single_tiff * 3
images = io.magic_read(image_files)
assert isinstance(images, da.Array)
assert images.shape == (3, 2, 15, 10)
assert images.dtype == np.uint8
def test_tiff(single_tiff):
image_files = single_tiff
images = io.magic_read(image_files)
assert isinstance(images, np.ndarray)
assert images.shape == (2, 15, 10)
assert images.dtype == np.uint8
def test_multi_png_no_stack(two_pngs):
image_files = two_pngs
images = io.magic_read(image_files, stack=False)
assert isinstance(images, list)
assert len(images) == 2
assert all(a.shape == (512, 512) for a in images)
def test_multi_png_no_dask(two_pngs):
image_files = two_pngs
images = io.magic_read(image_files, use_dask=False)
assert isinstance(images, np.ndarray)
assert images.shape == (2, 512, 512)
def test_multi_png_defaults(two_pngs):
image_files = two_pngs
images = io.magic_read(image_files)
assert type(images) == da.Array
assert images.shape == (2, 512, 512)