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ENH: Add collapse strategy option. #420

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merged 1 commit into from
Jan 6, 2023
Merged

ENH: Add collapse strategy option. #420

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16 changes: 14 additions & 2 deletions ants/lib/LOCAL_sliceImage.cxx
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Original file line number Diff line number Diff line change
Expand Up @@ -10,7 +10,7 @@
namespace py = pybind11;

template < typename ImageType, typename PixelType, unsigned int NewDimension >
py::capsule sliceImage( py::capsule antsImage, int plane, int slice)
py::capsule sliceImage( py::capsule antsImage, int plane, int slice, int collapseStrategy)
{
typedef typename ImageType::Pointer ImagePointerType;
ImagePointerType itkImage = as< ImageType >( antsImage );
Expand All @@ -33,7 +33,19 @@ py::capsule sliceImage( py::capsule antsImage, int plane, int slice)

filter->SetExtractionRegion( desiredRegion );
filter->SetInput( itkImage );
filter->SetDirectionCollapseToGuess();
if( collapseStrategy == 0 )
{
filter->SetDirectionCollapseToSubmatrix();
}
else if( collapseStrategy == 1 )
{
filter->SetDirectionCollapseToIdentity();
}
else // if( collapseStrategy == 2 )
{
filter->SetDirectionCollapseToGuess();
}

filter->Update();

return wrap<SliceImageType>( filter->GetOutput() );
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21 changes: 19 additions & 2 deletions ants/utils/slice_image.py
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Original file line number Diff line number Diff line change
Expand Up @@ -7,10 +7,24 @@
from .. import utils


def slice_image(image, axis=None, idx=None):
def slice_image(image, axis=None, idx=None, collapse_strategy=0):
"""
Slice an image.

Arguments
---------
axis: integer
Which axis.

idx: integer
Which slice number.

collapse_strategy: integer
Collapse strategy for sub-matrix: 0, 1, or 2. 0: collapse to sub-matrix
if positive-definite. Otherwise throw an exception. Default. 1: Collapse
to identity. 2: Collapse to sub-matrix if positive definite. Otherwise
collapse to identity.

Example
-------
>>> import ants
Expand All @@ -20,13 +34,16 @@ def slice_image(image, axis=None, idx=None):
if image.dimension < 3:
raise ValueError('image must have at least 3 dimensions')

if collapse_strategy != 0 or collapse_strategy != 1 or collapse_strategy != 2:
raise ValueError('collapse_strategy must be 0, 1, or 2.')

inpixeltype = image.pixeltype
ndim = image.dimension
if image.pixeltype != 'float':
image = image.clone('float')

libfn = utils.get_lib_fn('sliceImageF%i' % ndim)
itkimage = libfn(image.pointer, axis, idx)
itkimage = libfn(image.pointer, axis, idx, collapse_strategy)

return iio.ANTsImage(pixeltype='float', dimension=ndim-1,
components=image.components, pointer=itkimage).clone(inpixeltype)
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