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/*=========================================================================
*
* Copyright NumFOCUS
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* https://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
#ifndef itkPyBuffer_hxx
#define itkPyBuffer_hxx
#include "itkImportImageContainer.h"
namespace itk
{
template <class TImage>
PyObject *
PyBuffer<TImage>::_GetArrayViewFromImage(ImageType * image)
{
PyObject * memoryView = NULL;
Py_buffer pyBuffer;
memset(&pyBuffer, 0, sizeof(Py_buffer));
Py_ssize_t len = 1;
size_t pixelSize = sizeof(ComponentType);
int res = 0;
if (!image)
{
throw std::runtime_error("Input image is null");
}
image->Update();
ComponentType * buffer =
const_cast<ComponentType *>(reinterpret_cast<const ComponentType *>(image->GetBufferPointer()));
void * itkImageBuffer = (void *)(buffer);
// Computing the length of data
const int numberOfComponents = image->GetNumberOfComponentsPerPixel();
SizeType size = image->GetBufferedRegion().GetSize();
for (unsigned int dim = 0; dim < ImageDimension; ++dim)
{
len *= size[dim];
}
len *= numberOfComponents;
len *= pixelSize;
res = PyBuffer_FillInfo(&pyBuffer, NULL, (void *)itkImageBuffer, len, 0, PyBUF_CONTIG);
memoryView = PyMemoryView_FromBuffer(&pyBuffer);
PyBuffer_Release(&pyBuffer);
return memoryView;
}
template <class TImage>
auto
PyBuffer<TImage>::_GetImageViewFromArray(PyObject * arr, PyObject * shape, PyObject * numOfComponent)
-> const OutputImagePointer
{
PyObject * shapeseq = NULL;
PyObject * item = NULL;
Py_ssize_t bufferLength;
Py_buffer pyBuffer;
memset(&pyBuffer, 0, sizeof(Py_buffer));
SizeType size;
SizeType sizeFortran;
SizeValueType numberOfPixels = 1;
const void * buffer;
long numberOfComponents = 1;
unsigned int dimension = 0;
size_t pixelSize = sizeof(ComponentType);
size_t len = 1;
if (PyObject_GetBuffer(arr, &pyBuffer, PyBUF_ND | PyBUF_ANY_CONTIGUOUS) == -1)
{
PyErr_SetString(PyExc_RuntimeError, "Cannot get an instance of NumPy array.");
PyBuffer_Release(&pyBuffer);
return nullptr;
}
else
{
bufferLength = pyBuffer.len;
buffer = pyBuffer.buf;
}
PyBuffer_Release(&pyBuffer);
shapeseq = PySequence_Fast(shape, "expected sequence");
dimension = PySequence_Size(shape);
numberOfComponents = PyInt_AsLong(numOfComponent);
for (unsigned int i = 0; i < dimension; ++i)
{
item = PySequence_GetItem(shapeseq, i);
size[i] = (SizeValueType)PyInt_AsLong(item);
sizeFortran[dimension - 1 - i] = (SizeValueType)PyInt_AsLong(item);
Py_DECREF(item);
numberOfPixels *= size[i];
}
bool isFortranContiguous = false;
if (pyBuffer.strides != NULL && pyBuffer.itemsize == pyBuffer.strides[0])
{
isFortranContiguous = true;
}
len = numberOfPixels * numberOfComponents * pixelSize;
if (bufferLength != len)
{
PyErr_SetString(PyExc_RuntimeError, "Size mismatch of image and Buffer.");
PyBuffer_Release(&pyBuffer);
SWIG_Py_DECREF(shapeseq);
return nullptr;
}
IndexType start;
start.Fill(0);
RegionType region;
region.SetIndex(start);
region.SetSize(size);
if (isFortranContiguous)
{
region.SetSize(sizeFortran);
}
else
{
region.SetSize(size);
}
PointType origin;
origin.Fill(0.0);
SpacingType spacing;
spacing.Fill(1.0);
using InternalPixelType = typename TImage::InternalPixelType;
using ImporterType = ImportImageContainer<SizeValueType, InternalPixelType>;
auto importer = ImporterType::New();
constexpr bool importImageFilterWillOwnTheBuffer = false;
InternalPixelType * data = (InternalPixelType *)buffer;
importer->SetImportPointer(data, numberOfPixels, importImageFilterWillOwnTheBuffer);
OutputImagePointer output = TImage::New();
output->SetRegions(region);
output->SetOrigin(origin);
output->SetSpacing(spacing);
output->SetPixelContainer(importer);
output->SetNumberOfComponentsPerPixel(numberOfComponents);
SWIG_Py_DECREF(shapeseq);
PyBuffer_Release(&pyBuffer);
return output;
}
} // namespace itk
#endif
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