black reformat

napari_split_dataset/__init__.py

@@ -1,6 +1,6 @@
 """Top-level package for napari-split-dataset."""
 
 __author__ = """You Wu"""
-__version__ = '0.1.0'
+__version__ = "0.1.0"
 
 from ._reader import napari_get_reader

napari_split_dataset/_reader.py

@@ -26,14 +26,21 @@ def read_directory(path):
     if len(data.shape) > 3:
         # set contrast limits for 4D data
         # otherwise napari tries to set them after reading everything, which would take too long if the data was large.
-        data_for_contrast = data[min(2, data.shape[0]-1):min(7, data.shape[0]), :, :, :]
-        contrast_limits = (np.percentile(data_for_contrast, 0.1), np.percentile(data_for_contrast, 99.9))
+        data_for_contrast = data[
+            min(2, data.shape[0] - 1) : min(7, data.shape[0]), :, :, :
+        ]
+        contrast_limits = (
+            np.percentile(data_for_contrast, 0.1),
+            np.percentile(data_for_contrast, 99.9),
+        )
 
         data = data.as_dask()  # read as a dask array
         # optional kwargs for the corresponding viewer.add_* method
-        add_kwargs = {"contrast_limits": contrast_limits,}
+        add_kwargs = {
+            "contrast_limits": contrast_limits,
+        }
     else:
-        data = data[:,:,:]
+        data = data[:, :, :]
         add_kwargs = {}
 
     layer_type = "image"  # optional, default is "image"

setup.py

@@ -5,7 +5,7 @@
 from setuptools import setup, find_packages
 import os
 
-with open('README.rst') as readme_file:
+with open("README.rst") as readme_file:
     readme = readme_file.read()
 
 # with open('HISTORY.rst') as history_file:
@@ -17,38 +17,42 @@
 with open("requirements_dev.txt") as f:
     requirements_dev = f.read().splitlines()
 
-setup_requirements = ['pytest-runner', ]
+setup_requirements = [
+    "pytest-runner",
+]
 
-test_requirements = ['pytest>=3', ]
+test_requirements = [
+    "pytest>=3",
+]
 
 setup(
     author="You Wu",
-    author_email='[email protected]',
-    python_requires='>=3.5',
+    author_email="[email protected]",
+    python_requires=">=3.5",
     classifiers=[
-        'Development Status :: 2 - Pre-Alpha',
-        'Intended Audience :: Developers',
-        'License :: OSI Approved :: GNU General Public License v3 (GPLv3)',
-        'Natural Language :: English',
-        'Programming Language :: Python :: 3',
-        'Programming Language :: Python :: 3.5',
-        'Programming Language :: Python :: 3.6',
-        'Programming Language :: Python :: 3.7',
-        'Programming Language :: Python :: 3.8',
+        "Development Status :: 2 - Pre-Alpha",
+        "Intended Audience :: Developers",
+        "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
+        "Natural Language :: English",
+        "Programming Language :: Python :: 3",
+        "Programming Language :: Python :: 3.5",
+        "Programming Language :: Python :: 3.6",
+        "Programming Language :: Python :: 3.7",
+        "Programming Language :: Python :: 3.8",
     ],
     description="hdf5/split-dataset file reader for napari",
     extras_require=dict(dev=requirements_dev),
     install_requires=requirements,
     license="GNU General Public License v3",
     # long_description=readme + '\n\n' + history,
     include_package_data=True,
-    keywords='napari_split_dataset',
-    name='napari_split_dataset',
-    packages=find_packages(include=['napari_split_dataset', 'napari_split_dataset.*']),
+    keywords="napari_split_dataset",
+    name="napari_split_dataset",
+    packages=find_packages(include=["napari_split_dataset", "napari_split_dataset.*"]),
     setup_requires=setup_requirements,
-    test_suite='tests',
+    test_suite="tests",
     tests_require=test_requirements,
-    url='https://github.com/portugueslab/napari_split_dataset',
-    version='0.1.0',
+    url="https://github.com/portugueslab/napari_split_dataset",
+    version="0.1.0",
     zip_safe=False,
 )

tests/test_napari_split_dataset.py

@@ -7,6 +7,7 @@
 from numpy import ndarray
 from dask.array.core import Array
 
+
 @pytest.mark.parametrize(
     "path",
     [
@@ -26,6 +27,7 @@ def test_reader(path):
     reader = _reader.napari_get_reader(path)
     assert callable(reader)
 
+
 @pytest.mark.parametrize(
     "path",
     [