84 lines
2.6 KiB
Python
84 lines
2.6 KiB
Python
import pathlib
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from tempfile import NamedTemporaryFile
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import numpy as np
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import pytest
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from numpy.testing import assert_array_almost_equal, assert_array_equal
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from skimage._shared.testing import fetch
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from skimage.io import imread, imsave, reset_plugins, use_plugin
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@pytest.fixture(autouse=True)
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def _use_tifffile_plugin():
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"""Ensure that PIL plugin is used in tests here."""
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use_plugin('tifffile')
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np.random.seed(0)
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yield
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reset_plugins()
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def test_imread_uint16():
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expected = np.load(fetch('data/chessboard_GRAY_U8.npy'))
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img = imread(fetch('data/chessboard_GRAY_U16.tif'))
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assert img.dtype == np.uint16
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assert_array_almost_equal(img, expected)
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def test_imread_uint16_big_endian():
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expected = np.load(fetch('data/chessboard_GRAY_U8.npy'))
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img = imread(fetch('data/chessboard_GRAY_U16B.tif'))
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assert img.dtype.type == np.uint16
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assert_array_almost_equal(img, expected)
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def test_imread_multipage_rgb_tif():
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img = imread(fetch('data/multipage_rgb.tif'))
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assert img.shape == (2, 10, 10, 3), img.shape
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def test_tifffile_kwarg_passthrough():
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img = imread(fetch('data/multipage.tif'), key=[1], is_ome=True)
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assert img.shape == (15, 10), img.shape
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def test_imread_handle():
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expected = np.load(fetch('data/chessboard_GRAY_U8.npy'))
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with open(fetch('data/chessboard_GRAY_U16.tif'), 'rb') as fh:
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img = imread(fh)
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assert img.dtype == np.uint16
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assert_array_almost_equal(img, expected)
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class TestSave:
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def roundtrip(self, dtype, x, use_pathlib=False, **kwargs):
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with NamedTemporaryFile(suffix='.tif') as f:
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fname = f.name
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if use_pathlib:
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fname = pathlib.Path(fname)
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imsave(fname, x, check_contrast=False, **kwargs)
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y = imread(fname)
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assert_array_equal(x, y)
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shapes = ((10, 10), (10, 10, 3), (10, 10, 4))
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dtypes = (np.uint8, np.uint16, np.float32, np.int16, np.float64)
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@pytest.mark.parametrize("shape", shapes)
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@pytest.mark.parametrize("dtype", dtypes)
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@pytest.mark.parametrize("use_pathlib", [False, True])
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@pytest.mark.parametrize('explicit_photometric_kwarg', [False, True])
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def test_imsave_roundtrip(
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self, shape, dtype, use_pathlib, explicit_photometric_kwarg
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):
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x = np.random.rand(*shape)
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if not np.issubdtype(dtype, np.floating):
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x = (x * np.iinfo(dtype).max).astype(dtype)
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else:
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x = x.astype(dtype)
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if explicit_photometric_kwarg and x.shape[-1] in [3, 4]:
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kwargs = {'photometric': 'rgb'}
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else:
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kwargs = {}
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self.roundtrip(dtype, x, use_pathlib, **kwargs)
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