[ITK] [ITK-users] Writing from an external buffer to VectorImage
Kabelitz, Gordian
Gordian.Kabelitz at medma.uni-heidelberg.de
Wed Jun 28 09:51:41 EDT 2017
Hello,
i computed a gradient with my own function and as a result a pointer to an image buffer is provided. I know the size, origin and spacing of the gradient component image.
I want to copy the gradient image into an itk::VectorImage with the components for the x,y,z gradients.
The way I copied the image to the GPU is that I retrieved the buffer pointer from my input image and use the pointer to copy the image data to the GPU.
I used the way proposed in [1]. The computeGradientImage method is listed at the end of this mail.
[...]
// get float pointer to image data
ImageType::Pointer image = reader->GetOutput();
Image->Update();
float* data = image.GetBufferPointer();
// copy image data to GPU texture memory (this works)
gpu_dev->setVoxels(dimension, voxelSize, data);
[...]
computeGradientImage<<<n,m>>> (dev_gradientImage, dimension);
// copy resulting gradientImage to host variable
float4* host_gradientImage;
cudaMemcpy(host_gradient, dev_gradientImage, numberOfVoxels*sizeof(float4));
--> Pseudo Code <--
// Now I want to reverse the copy process. I have a float4 image and want to copy this into a itk::VectorImage with VariableVectorLength of 3 (skipping the magnitude value).
[...] -> size, spacing, origin, region definition
Itk::VectorImageType vecImage = VectorImageType::New();
vecImage->setRegion(region);
vecImage ->SetVectorLength(3);
vecImage->Allocate();
// copy image buffer to vecImage, component by component
auto vecBuffer = vecImage->getBufferPointer();
auto j = 0;
for (i=0; i<totalVoxel; ++i)
{
vecbuffer[j] = host_gradient[i].x; j++;
vecbuffer[j] = host_gradient[i].y; j++;
vecbuffer[j] = host_gradient[i].z; j++;
}
// save vecImage as nrrd image
[...]
I haven't found a way to achieve my idea.
Are there any suggestions or examples?
As far I can see I cannot use the itk::ImportImageFilter.
Thank you for any suggestions.
With kind regards,
Gordian
[1]: https://itk.org/CourseWare/Training/GettingStarted-V.pdf
void computeGradientImage(float4* gradientImage, int* dimension)
{
// every thread computes the float4 voxel with theta,phi,magnitude from gradient image
int idx = blockIdx.x * blockDim.x + threadIdx.x;
int idy = blockIdx.y * blockDim.y + threadIdx.y;
int idz = blockIdx.z * blockDim.z + threadIdx.z;
if (idx < dimension[0] && idy < dimension[1] && idz < dimension[2])
{
// define sobel filter for each direction
[...]
// run sobel on image in texture memory for each direction and put result into a float4 image
gradientImage[idx + dimension[0] * (idy + idz * dimension[1])] = make_float4(sobelX, sobelY, sobelZ, magn);
}
}
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