Sort import statements by using isort

isort --atomic python/**/*.py

python/cucim/ci/bootstrap.py

@@ -1,16 +1,11 @@
 #!/usr/bin/env python
 # -*- coding: utf-8 -*-
-from __future__ import absolute_import
-from __future__ import print_function
-from __future__ import unicode_literals
+from __future__ import absolute_import, print_function, unicode_literals
 
 import os
 import subprocess
 import sys
-from os.path import abspath
-from os.path import dirname
-from os.path import exists
-from os.path import join
+from os.path import abspath, dirname, exists, join
 
 base_path = dirname(dirname(abspath(__file__)))
 

python/cucim/setup.py

@@ -1,17 +1,13 @@
 #!/usr/bin/env python
 # -*- encoding: utf-8 -*-
-from __future__ import absolute_import
-from __future__ import print_function
+from __future__ import absolute_import, print_function
 
 import io
 import sys
-from os.path import dirname
-from os.path import join
-
-from setuptools import find_packages
-from setuptools import setup
+from os.path import dirname, join
 
 import versioneer
+from setuptools import find_packages, setup
 
 # Give setuptools a hint to complain if it's too old a version
 # 24.2.0 added the python_requires option

python/cucim/src/cucim/__init__.py

@@ -41,7 +41,7 @@
     pass
 
 try:
-    from .clara import __version__, CuImage, cli
+    from .clara import CuImage, __version__, cli
 except ImportError:
     from ._version import get_versions
     __version__ = get_versions()['version']

python/cucim/src/cucim/clara/__init__.py

@@ -17,7 +17,7 @@
 
 from . import cli, converter
 # import hidden methods
-from ._cucim import CuImage, __version__, filesystem, io, cache
+from ._cucim import CuImage, __version__, cache, filesystem, io
 
 __all__ = ['cli', 'CuImage', 'filesystem', 'io', 'cache', 'converter', '__version__']
 

python/cucim/src/cucim/clara/cache/__init__.py

@@ -13,6 +13,7 @@
 # limitations under the License.
 #
 
-from cucim.clara._cucim.cache import CacheType, ImageCache, preferred_memory_capacity
+from cucim.clara._cucim.cache import (CacheType, ImageCache,
+                                      preferred_memory_capacity)
 
 __all__ = ['CacheType', 'ImageCache', 'preferred_memory_capacity']

python/cucim/src/cucim/skimage/color/tests/test_colorconv.py

@@ -22,12 +22,12 @@
 from cucim.skimage.color import (combine_stains, convert_colorspace, gray2rgb,
                                  gray2rgba, hed2rgb, hsv2rgb, lab2lch, lab2rgb,
                                  lab2xyz, lch2lab, luv2rgb, luv2xyz, rgb2gray,
-                                 rgb2hed, rgb2hsv, rgb2lab, rgb2luv, rgb2rgbcie,
-                                 rgb2xyz, rgb2ycbcr, rgb2ydbdr, rgb2yiq,
-                                 rgb2ypbpr, rgb2yuv, rgba2rgb, rgbcie2rgb,
-                                 separate_stains, xyz2lab, xyz2luv, xyz2rgb,
-                                 ycbcr2rgb, ydbdr2rgb, yiq2rgb, ypbpr2rgb,
-                                 yuv2rgb)
+                                 rgb2hed, rgb2hsv, rgb2lab, rgb2luv,
+                                 rgb2rgbcie, rgb2xyz, rgb2ycbcr, rgb2ydbdr,
+                                 rgb2yiq, rgb2ypbpr, rgb2yuv, rgba2rgb,
+                                 rgbcie2rgb, separate_stains, xyz2lab, xyz2luv,
+                                 xyz2rgb, ycbcr2rgb, ydbdr2rgb, yiq2rgb,
+                                 ypbpr2rgb, yuv2rgb)
 from cucim.skimage.util import img_as_float, img_as_float32, img_as_ubyte
 
 

python/cucim/src/cucim/skimage/filters/__init__.py

@@ -16,8 +16,9 @@
 from .thresholding import (apply_hysteresis_threshold, threshold_isodata,
                            threshold_li, threshold_local, threshold_mean,
                            threshold_minimum, threshold_multiotsu,
-                           threshold_niblack, threshold_otsu, threshold_sauvola,
-                           threshold_triangle, threshold_yen, try_all_threshold)
+                           threshold_niblack, threshold_otsu,
+                           threshold_sauvola, threshold_triangle,
+                           threshold_yen, try_all_threshold)
 
 __all__ = [
     "inverse",

python/cucim/src/cucim/skimage/filters/tests/test_thresholding.py

@@ -14,8 +14,9 @@
 from cucim.skimage.color import rgb2gray
 from cucim.skimage.exposure import histogram
 from cucim.skimage.filters.thresholding import _cross_entropy  # _mean_std,
-from cucim.skimage.filters.thresholding import (threshold_isodata, threshold_li,
-                                                threshold_local, threshold_mean,
+from cucim.skimage.filters.thresholding import (threshold_isodata,
+                                                threshold_li, threshold_local,
+                                                threshold_mean,
                                                 threshold_minimum,
                                                 threshold_multiotsu,
                                                 threshold_niblack,

python/cucim/src/cucim/skimage/transform/__init__.py

@@ -3,8 +3,8 @@
                          PiecewiseAffineTransform, PolynomialTransform,
                          ProjectiveTransform, SimilarityTransform,
                          estimate_transform, matrix_transform)
-from ._warps import (downscale_local_mean, rescale, resize, rotate, swirl, warp,
-                     warp_coords, warp_polar)
+from ._warps import (downscale_local_mean, rescale, resize, rotate, swirl,
+                     warp, warp_coords, warp_polar)
 from .integral import integral_image, integrate
 from .pyramids import (pyramid_expand, pyramid_gaussian, pyramid_laplacian,
                        pyramid_reduce)

python/cucim/tests/fixtures/testimage.py

@@ -14,10 +14,12 @@
 #
 
 import shutil
+
 import pytest
-from ..util.gen_image import ImageGenerator
 from pytest_lazyfixture import lazy_fixture
 
+from ..util.gen_image import ImageGenerator
+
 
 def gen_image(tmpdir_factory, recipe):
     dataset_path = tmpdir_factory.mktemp('datasets').strpath

python/cucim/tests/performance/clara/test_read_region_memory_usage.py

@@ -14,6 +14,7 @@
 #
 
 import pytest
+
 from ...util.io import open_image_cucim
 
 
@@ -46,6 +47,7 @@ def test_read_region_cuda_memleak(testimg_tiff_stripe_4096x4096_256):
 
 def test_read_region_cpu_memleak(testimg_tiff_stripe_4096x4096_256):
     import os
+
     import psutil
     process = psutil.Process(os.getpid())
 
@@ -65,8 +67,9 @@ def test_read_region_cpu_memleak(testimg_tiff_stripe_4096x4096_256):
 
 def test_read_random_region_cpu_memleak(testimg_tiff_stripe_4096x4096_256):
     import os
-    import psutil
     import random
+
+    import psutil
     process = psutil.Process(os.getpid())
 
     img = open_image_cucim(testimg_tiff_stripe_4096x4096_256)

python/cucim/tests/unit/clara/test_load_image.py

@@ -14,6 +14,7 @@
 #
 
 import pytest
+
 from ...util.io import open_image_cucim
 
 

python/cucim/tests/unit/clara/test_tiff_read_region.py

@@ -15,6 +15,7 @@
 
 import numpy as np
 import pytest
+
 from ...util.io import open_image_cucim
 
 

python/cucim/tests/util/gen_tiff.py

@@ -13,12 +13,13 @@
 # limitations under the License.
 #
 
-from tifffile import TiffWriter
-import numpy as np
-from pathlib import Path
 from functools import reduce
+from pathlib import Path
 from tempfile import mkdtemp
 
+import numpy as np
+from tifffile import TiffWriter
+
 COMPRESSION_MAP = {'jpeg': ('jpeg', 95),
                    'deflate': 'deflate'}