STY: isort

[git-blame-ignore-rev]

nibabel/__init__.py

@@ -9,8 +9,8 @@
 
 import os
 
-from .pkg_info import __version__
 from .info import long_description as __doc__
+from .pkg_info import __version__
 
 __doc__ += """
 Quickstart
@@ -39,40 +39,37 @@
 
 # module imports
 from . import analyze as ana
-from . import spm99analyze as spm99
-from . import spm2analyze as spm2
+from . import ecat, mriutils
 from . import nifti1 as ni1
-from . import ecat
+from . import spm2analyze as spm2
+from . import spm99analyze as spm99
+from . import streamlines, viewers
+from .analyze import AnalyzeHeader, AnalyzeImage
+from .arrayproxy import is_proxy
+from .cifti2 import Cifti2Header, Cifti2Image
 
 # object imports
 from .fileholders import FileHolder, FileHolderError
+from .freesurfer import MGHImage
+from .funcs import as_closest_canonical, concat_images, four_to_three, squeeze_image
+from .gifti import GiftiImage
+from .imageclasses import all_image_classes, class_map, ext_map
 from .loadsave import load, save
-from .arrayproxy import is_proxy
-from .analyze import AnalyzeHeader, AnalyzeImage
-from .spm99analyze import Spm99AnalyzeHeader, Spm99AnalyzeImage
-from .spm2analyze import Spm2AnalyzeHeader, Spm2AnalyzeImage
-from .nifti1 import Nifti1Header, Nifti1Image, Nifti1Pair
-from .nifti2 import Nifti2Header, Nifti2Image, Nifti2Pair
 from .minc1 import Minc1Image
 from .minc2 import Minc2Image
-from .cifti2 import Cifti2Header, Cifti2Image
-from .gifti import GiftiImage
-from .freesurfer import MGHImage
-from .funcs import squeeze_image, concat_images, four_to_three, as_closest_canonical
+from .nifti1 import Nifti1Header, Nifti1Image, Nifti1Pair
+from .nifti2 import Nifti2Header, Nifti2Image, Nifti2Pair
 from .orientations import (
-    io_orientation,
-    orientation_affine,
-    flip_axis,
     OrientationError,
-    apply_orientation,
     aff2axcodes,
+    apply_orientation,
+    flip_axis,
+    io_orientation,
+    orientation_affine,
 )
-from .imageclasses import class_map, ext_map, all_image_classes
-from . import mriutils
-from . import streamlines
-from . import viewers
-
 from .pkg_info import get_pkg_info as _get_pkg_info
+from .spm2analyze import Spm2AnalyzeHeader, Spm2AnalyzeImage
+from .spm99analyze import Spm99AnalyzeHeader, Spm99AnalyzeImage
 
 
 def get_info():

nibabel/affines.py

@@ -2,10 +2,10 @@
 # vi: set ft=python sts=4 ts=4 sw=4 et:
 """Utility routines for working with points and affine transforms
 """
-import numpy as np
-
 from functools import reduce
 
+import numpy as np
+
 
 class AffineError(ValueError):
     """Errors in calculating or using affines"""

nibabel/analyze.py

@@ -84,21 +84,21 @@
 
 import numpy as np
 
+from .arrayproxy import ArrayProxy
+from .arraywriters import ArrayWriter, WriterError, get_slope_inter, make_array_writer
+from .batteryrunners import Report
+from .fileholders import copy_file_map
+from .spatialimages import HeaderDataError, HeaderTypeError, SpatialImage
 from .volumeutils import (
-    native_code,
-    swapped_code,
-    make_dt_codes,
-    shape_zoom_affine,
+    apply_read_scaling,
     array_from_file,
+    make_dt_codes,
+    native_code,
     seek_tell,
-    apply_read_scaling,
+    shape_zoom_affine,
+    swapped_code,
 )
-from .arraywriters import make_array_writer, get_slope_inter, WriterError, ArrayWriter
 from .wrapstruct import LabeledWrapStruct
-from .spatialimages import HeaderDataError, HeaderTypeError, SpatialImage
-from .fileholders import copy_file_map
-from .batteryrunners import Report
-from .arrayproxy import ArrayProxy
 
 # Sub-parts of standard analyze header from
 # Mayo dbh.h file

nibabel/arrayproxy.py

@@ -30,10 +30,9 @@
 
 import numpy as np
 
-from .volumeutils import array_from_file, apply_read_scaling
-from .fileslice import fileslice, canonical_slicers
 from . import openers
-
+from .fileslice import canonical_slicers, fileslice
+from .volumeutils import apply_read_scaling, array_from_file
 
 """This flag controls whether a new file handle is created every time an image
 is accessed through an ``ArrayProxy``, or a single file handle is created and
@@ -389,8 +388,8 @@ def reshape(self, shape):
         size = np.prod(self._shape)
 
         # Calculate new shape if not fully specified
-        from operator import mul
         from functools import reduce
+        from operator import mul
 
         n_unknowns = len([e for e in shape if e == -1])
         if n_unknowns > 1:

nibabel/arraywriters.py

@@ -32,16 +32,16 @@ def __init__(self, array, out_dtype=None)
 import numpy as np
 
 from .casting import (
-    int_to_float,
     as_int,
-    int_abs,
-    type_info,
-    floor_exact,
     best_float,
+    floor_exact,
+    int_abs,
+    int_to_float,
     shared_range,
+    type_info,
 )
-from .volumeutils import finite_range, array_to_file
 from .deprecator import ExpiredDeprecationError
+from .volumeutils import array_to_file, finite_range
 
 
 class WriterError(Exception):

nibabel/benchmarks/bench_array_to_file.py

@@ -14,13 +14,12 @@
 from io import BytesIO  # NOQA
 
 import numpy as np
-
-from .butils import print_git_title
-
 from numpy.testing import measure
 
 from nibabel.volumeutils import array_to_file  # NOQA
 
+from .butils import print_git_title
+
 
 def bench_array_to_file():
     rng = np.random.RandomState(20111001)

nibabel/benchmarks/bench_arrayproxy_slicing.py

@@ -10,18 +10,19 @@
     pytest -c <path>/benchmarks/pytest.benchmark.ini <path>/benchmarks/bench_arrayproxy_slicing.py
 """
 
-from timeit import timeit
 import gc
 import itertools as it
-import numpy as np
+from timeit import timeit
 from unittest import mock
 
+import numpy as np
+
 import nibabel as nib
-from nibabel.tmpdirs import InTemporaryDirectory
 from nibabel.openers import HAVE_INDEXED_GZIP
+from nibabel.tmpdirs import InTemporaryDirectory
 
-from .butils import print_git_title
 from ..rstutils import rst_table
+from .butils import print_git_title
 
 # if memory_profiler is installed, we get memory usage results
 try:

nibabel/benchmarks/bench_fileslice.py

@@ -9,16 +9,16 @@
 """
 
 import sys
+from io import BytesIO
 from timeit import timeit
 
 import numpy as np
 
-from io import BytesIO
-from ..openers import ImageOpener
 from ..fileslice import fileslice
+from ..openers import ImageOpener
+from ..optpkg import optional_package
 from ..rstutils import rst_table
 from ..tmpdirs import InTemporaryDirectory
-from ..optpkg import optional_package
 
 SHAPE = (64, 64, 32, 100)
 ROW_NAMES = [f'axis {i}, len {dim}' for i, dim in enumerate(SHAPE)]

nibabel/benchmarks/bench_finite_range.py

@@ -13,14 +13,12 @@
 import sys
 
 import numpy as np
-
-
-from .butils import print_git_title
-
 from numpy.testing import measure
 
 from nibabel.volumeutils import finite_range  # NOQA
 
+from .butils import print_git_title
+
 
 def bench_finite_range():
     rng = np.random.RandomState(20111001)

nibabel/benchmarks/bench_load_save.py

@@ -11,17 +11,14 @@
 """
 
 import sys
+from io import BytesIO
 
 import numpy as np
-
-from io import BytesIO
+from numpy.testing import measure
 
 from .. import Nifti1Image
-
 from .butils import print_git_title
 
-from numpy.testing import measure
-
 
 def bench_load_save():
     rng = np.random.RandomState(20111001)

nibabel/brikhead.py

@@ -28,15 +28,15 @@
 programs (e.g., example4d+orig'[0]').
 """
 
-from copy import deepcopy
 import os
 import re
+from copy import deepcopy
 
 import numpy as np
 
 from .arrayproxy import ArrayProxy
 from .fileslice import strided_scalar
-from .spatialimages import SpatialImage, SpatialHeader, HeaderDataError, ImageDataError
+from .spatialimages import HeaderDataError, ImageDataError, SpatialHeader, SpatialImage
 from .volumeutils import Recoder
 
 # used for doc-tests

nibabel/casting.py

@@ -6,7 +6,7 @@
 
 import warnings
 from numbers import Integral
-from platform import processor, machine
+from platform import machine, processor
 
 import numpy as np
 

nibabel/cifti2/__init__.py

@@ -17,28 +17,28 @@
    cifti2_axes
 """
 
-from .parse_cifti2 import Cifti2Extension
 from .cifti2 import (
-    Cifti2MetaData,
+    CIFTI_BRAIN_STRUCTURES,
+    CIFTI_MODEL_TYPES,
+    Cifti2BrainModel,
     Cifti2Header,
+    Cifti2HeaderError,
     Cifti2Image,
     Cifti2Label,
     Cifti2LabelTable,
-    Cifti2VertexIndices,
-    Cifti2VoxelIndicesIJK,
-    Cifti2BrainModel,
     Cifti2Matrix,
     Cifti2MatrixIndicesMap,
+    Cifti2MetaData,
     Cifti2NamedMap,
     Cifti2Parcel,
     Cifti2Surface,
     Cifti2TransformationMatrixVoxelIndicesIJKtoXYZ,
+    Cifti2VertexIndices,
     Cifti2Vertices,
     Cifti2Volume,
-    CIFTI_BRAIN_STRUCTURES,
-    Cifti2HeaderError,
-    CIFTI_MODEL_TYPES,
+    Cifti2VoxelIndicesIJK,
     load,
     save,
 )
-from .cifti2_axes import Axis, BrainModelAxis, ParcelsAxis, SeriesAxis, LabelAxis, ScalarAxis
+from .cifti2_axes import Axis, BrainModelAxis, LabelAxis, ParcelsAxis, ScalarAxis, SeriesAxis
+from .parse_cifti2 import Cifti2Extension

nibabel/cifti2/cifti2.py

@@ -17,19 +17,19 @@
     http://www.nitrc.org/projects/cifti
 """
 import re
-from collections.abc import MutableSequence, MutableMapping, Iterable
 from collections import OrderedDict
+from collections.abc import Iterable, MutableMapping, MutableSequence
 from warnings import warn
 
 import numpy as np
 
 from .. import xmlutils as xml
-from ..filebasedimages import FileBasedHeader, SerializableImage
-from ..dataobj_images import DataobjImage
-from ..nifti1 import Nifti1Extensions
-from ..nifti2 import Nifti2Image, Nifti2Header
 from ..arrayproxy import reshape_dataobj
 from ..caret import CaretMetaData
+from ..dataobj_images import DataobjImage
+from ..filebasedimages import FileBasedHeader, SerializableImage
+from ..nifti1 import Nifti1Extensions
+from ..nifti2 import Nifti2Header, Nifti2Image
 from ..volumeutils import make_dt_codes
 
 
@@ -1473,7 +1473,7 @@ def from_file_map(klass, file_map, *, mmap=True, keep_file_open=None):
         img : Cifti2Image
             Returns a Cifti2Image
         """
-        from .parse_cifti2 import _Cifti2AsNiftiImage, Cifti2Extension
+        from .parse_cifti2 import Cifti2Extension, _Cifti2AsNiftiImage
 
         nifti_img = _Cifti2AsNiftiImage.from_file_map(
             file_map, mmap=mmap, keep_file_open=keep_file_open

nibabel/cifti2/cifti2_axes.py

@@ -118,10 +118,12 @@
 ...                                     bm_cortex)))
 <class 'nibabel.cifti2.cifti2.Cifti2Header'>
 """
+import abc
+from operator import xor
+
 import numpy as np
+
 from . import cifti2
-from operator import xor
-import abc
 
 
 def from_index_mapping(mim):