Medical Imaging Interaction Toolkit  2018.4.99-cfdaacfc
Medical Imaging Interaction Toolkit
Implementing Own OpenCL-based Image Filter

This example demonstrates how to implement an image-to-image filter with some computations done on an OpenCL device ( most likely a GPU ). This particular example presents a simple threshold filter which uses an upper and lower threshold to map the pixel to the specified inside and outside value.

Since the filter we want to implement is an image-to-image filter, we will inherit from the mitk::OclImageToImageFilter class.

In the constructor, we set the source file of the filter, in this case is the file located in the default directory placed in the module itself. We also se the unique filter id string which serves as an identifier for storing and getting the associated program through the OclResourceService.

std::string path = "BinaryThresholdFilter.cl";
this->SetSourceFile( path.c_str() );
this->m_FilterID = "BinaryThreshold";
if ( OclFilter::Initialize() )
{
this->m_ckBinaryThreshold = clCreateKernel( this->m_clProgram, "ckBinaryThreshold", &clErr);
buildErr |= CHECK_OCL_ERR( clErr );
}

For preparing the execution we call the InitExec method provided by the superclass. We also catch exceptions singalising some initialization errors

try
{
this->InitExec( this->m_ckBinaryThreshold );
}
catch( const mitk::Exception& e)
{
MITK_ERROR << "Catched exception while initializing filter: " << e.what();
return;
}

In this example, the header of the OpenCL-Kernel to be executed is the following

__kernel void ckBinaryThreshold(
__read_only image3d_t dSource, // input image
__global uchar* dDest, // output buffer
int lowerT, int upperT, int outsideVal, int insideVal // parameters
)

The InitExec methods takes care of initializing the input and output images and their OpenCL counterparts. In addition both parameters are passed to the filter and the input data is copied (if necessary). If the first initialization part was successfull, we continue by passing in the values for the filter specific parameters:

clErr = clSetKernelArg( this->m_ckBinaryThreshold, 2, sizeof(cl_int), &(this->m_lowerThr) );
clErr |= clSetKernelArg( this->m_ckBinaryThreshold, 3, sizeof(cl_int), &(this->m_upperThr) );
clErr |= clSetKernelArg( this->m_ckBinaryThreshold, 4, sizeof(cl_int), &(this->m_outsideVal) );
clErr |= clSetKernelArg( this->m_ckBinaryThreshold, 5, sizeof(cl_int), &(this->m_insideVal) );
CHECK_OCL_ERR( clErr );

If this passes, we tell the superclass to execute our compiled kernel. The second argument specifies the dimensionality of the OpenCL NDRange ( the parallel execution grid ). In this example we use the 3D-Grid:

this->ExecuteKernel( m_ckBinaryThreshold, 3);
// signalize the GPU-side data changed
m_output->Modified( GPU_DATA );

Through the last line we signalize that the OpenCL-side data of the output image is modified. This is essential for getting the result data when calling GetOutput() afterwards.