mirror of
https://github.com/wassname/scikit-image.git
synced 2026-07-01 03:43:06 +08:00
Matt McCormick
ad23f203da
IO plugin for SimpleITK, http://simpleitk.org/ imread and imsave implemented. Tests based off the PIL tests.
94 lines
2.6 KiB
Python
94 lines
2.6 KiB
Python
import os.path
|
|
import numpy as np
|
|
from numpy.testing import *
|
|
from numpy.testing.decorators import skipif
|
|
|
|
from tempfile import NamedTemporaryFile
|
|
|
|
from skimage import data_dir
|
|
from skimage.io import imread, imsave, use_plugin, reset_plugins
|
|
|
|
try:
|
|
import SimpleITK as sitk
|
|
use_plugin('simpleitk')
|
|
except ImportError:
|
|
sitk_available = False
|
|
else:
|
|
sitk_available = True
|
|
|
|
|
|
def teardown():
|
|
reset_plugins()
|
|
|
|
|
|
def setup_module(self):
|
|
"""The effect of the `plugin.use` call may be overridden by later imports.
|
|
Call `use_plugin` directly before the tests to ensure that sitk is used.
|
|
|
|
"""
|
|
try:
|
|
use_plugin('simpleitk')
|
|
except ImportError:
|
|
pass
|
|
|
|
|
|
@skipif(not sitk_available)
|
|
def test_imread_flatten():
|
|
# a color image is flattened
|
|
img = imread(os.path.join(data_dir, 'color.png'), flatten=True)
|
|
assert img.ndim == 2
|
|
assert img.dtype == np.float64
|
|
img = imread(os.path.join(data_dir, 'camera.png'), flatten=True)
|
|
# check that flattening does not occur for an image that is grey already.
|
|
assert np.sctype2char(img.dtype) in np.typecodes['AllInteger']
|
|
|
|
|
|
@skipif(not sitk_available)
|
|
def test_bilevel():
|
|
expected = np.zeros((10, 10))
|
|
expected[::2] = 255
|
|
|
|
img = imread(os.path.join(data_dir, 'checker_bilevel.png'))
|
|
assert_array_equal(img, expected)
|
|
|
|
|
|
@skipif(not sitk_available)
|
|
def test_imread_uint16():
|
|
expected = np.load(os.path.join(data_dir, 'chessboard_GRAY_U8.npy'))
|
|
img = imread(os.path.join(data_dir, 'chessboard_GRAY_U16.tif'))
|
|
assert np.issubdtype(img.dtype, np.uint16)
|
|
assert_array_almost_equal(img, expected)
|
|
|
|
|
|
@skipif(not sitk_available)
|
|
def test_imread_uint16_big_endian():
|
|
expected = np.load(os.path.join(data_dir, 'chessboard_GRAY_U8.npy'))
|
|
img = imread(os.path.join(data_dir, 'chessboard_GRAY_U16B.tif'))
|
|
assert_array_almost_equal(img, expected)
|
|
|
|
|
|
class TestSave:
|
|
def roundtrip(self, dtype, x):
|
|
f = NamedTemporaryFile(suffix='.mha')
|
|
fname = f.name
|
|
f.close()
|
|
imsave(fname, x)
|
|
y = imread(fname)
|
|
|
|
assert_array_almost_equal(x, y)
|
|
|
|
@skipif(not sitk_available)
|
|
def test_imsave_roundtrip(self):
|
|
for shape in [(10, 10), (10, 10, 3), (10, 10, 4)]:
|
|
for dtype in (np.uint8, np.uint16, np.float32, np.float64):
|
|
x = np.ones(shape, dtype=dtype) * np.random.random(shape)
|
|
|
|
if np.issubdtype(dtype, float):
|
|
yield self.roundtrip, dtype, x
|
|
else:
|
|
x = (x * 255).astype(dtype)
|
|
yield self.roundtrip, dtype, x
|
|
|
|
if __name__ == "__main__":
|
|
run_module_suite()
|