private synchronized void projectSingleProjection(
int projectionNumber, int dimz, float respoffset) {
// load projection matrix
initProjectionMatrix(projectionNumber);
// load projection
Grid2D projection = projections.get(projectionNumber);
initProjectionData(projection);
if (!largeVolumeMode) {
// projections.remove(projectionNumber);
}
// backproject for each slice
// OpenCL Grids are only two dimensional!
int reconDimensionZ = dimz;
double voxelSpacingX = getGeometry().getVoxelSpacingX();
double voxelSpacingY = getGeometry().getVoxelSpacingY();
double voxelSpacingZ = getGeometry().getVoxelSpacingZ();
// write kernel parameters
kernelFunction.rewind();
kernelFunction
.putArg(volumePointer)
.putArg(respoffset)
.putArg((int) lineOffset)
.putArg(reconDimensionZ)
.putArg((float) voxelSpacingX)
.putArg((float) voxelSpacingY)
.putArg((float) voxelSpacingZ)
.putArg((float) offsetX)
.putArg((float) offsetY)
.putArg((float) offsetZ)
.putArg(projectionTex)
.putArg(volStride)
.putArg(projectionMatrix);
int[] realLocalSize = {
Math.min(device.getMaxWorkGroupSize(), bpBlockSize[0]),
Math.min(device.getMaxWorkGroupSize(), bpBlockSize[1])
};
// rounded up to the nearest multiple of localWorkSize
int[] globalWorkSize = {getGeometry().getReconDimensionX(), getGeometry().getReconDimensionY()};
// Call the OpenCL kernel, writing the results into the volume which is pointed at
commandQueue
.putWriteImage(projectionTex, false)
.finish()
.put2DRangeKernel(
kernelFunction,
0,
0,
globalWorkSize[0],
globalWorkSize[1],
realLocalSize[0],
realLocalSize[1])
// .finish()
// .putReadBuffer(dOut, true)
.finish();
}
public Grid2D add(OpenCLGrid2D image1, OpenCLGrid2D image2) {
// create context
if (context == null) {
context = OpenCLUtil.getStaticContext();
}
// select device
if (device == null) {
device = context.getMaxFlopsDevice();
}
// define local and global sizes
int width = Math.min(image1.getWidth(), image2.getWidth());
int height = Math.min(image1.getHeight(), image2.getHeight());
int imageSize = width * height;
int localWorkSize = Math.min(device.getMaxWorkGroupSize(), 8);
int globalWorkSizeW =
OpenCLUtil.roundUp(
localWorkSize, width); // rounded up to the nearest multiple of localWorkSize
int globalWorkSizeH = OpenCLUtil.roundUp(localWorkSize, height);
// load sources, create and build programm
if (program == null) {
try {
program =
context.createProgram(this.getClass().getResourceAsStream("exercise4.cl")).build();
} catch (IOException e) {
// TODO Auto-generated catch block
e.printStackTrace();
System.exit(-1);
}
}
// create output image
CLBuffer<FloatBuffer> output = context.createFloatBuffer(imageSize, Mem.WRITE_ONLY);
if (kernel == null) {
kernel = program.createCLKernel("addImages");
}
// createCommandQueue
CLCommandQueue queue = device.createCommandQueue();
image1.getDelegate().prepareForDeviceOperation();
image2.getDelegate().prepareForDeviceOperation();
// put memory on the graphics card
kernel
.putArg(image1.getDelegate().getCLBuffer())
.putArg(image2.getDelegate().getCLBuffer())
.putArg(output)
.putArg(width)
.putArg(height);
kernel.rewind();
queue
.put2DRangeKernel(
kernel, 0, 0, globalWorkSizeW, globalWorkSizeH, localWorkSize, localWorkSize)
.putBarrier()
// put memory from graphic card to host
.putReadBuffer(output, true)
.finish();
Grid2D result = new Grid2D(image1);
output.getBuffer().rewind();
for (int i = 0; i < result.getSize()[1]; ++i) {
for (int j = 0; j < result.getSize()[0]; j++) {
result.setAtIndex(j, i, output.getBuffer().get());
}
}
output.release();
queue.release();
return result;
}
protected void init() {
if (!initialized) {
largeVolumeMode = false;
int reconDimensionX = getGeometry().getReconDimensionX();
int reconDimensionY = getGeometry().getReconDimensionY();
int reconDimensionZ = getGeometry().getReconDimensionZ();
projectionsAvailable = new ArrayList<Integer>();
projectionsDone = new ArrayList<Integer>();
// Initialize JOCL.
context = OpenCLUtil.createContext();
try {
// get the fastest device
device = context.getMaxFlopsDevice();
// create the command queue
commandQueue = device.createCommandQueue();
// initialize the program
if (program == null || !program.getContext().equals(this.context)) {
program =
context
.createProgram(
OpenCLCompensatedBackProjector.class.getResourceAsStream(
"compensatedBackprojectCL.cl"))
.build();
}
} catch (Exception e) {
if (commandQueue != null) commandQueue.release();
if (kernelFunction != null) kernelFunction.release();
if (program != null) program.release();
// destory context
if (context != null) context.release();
// TODO: handle exception
e.printStackTrace();
}
// check space on device:
long memory = device.getMaxMemAllocSize();
long availableMemory = (memory);
long requiredMemory =
(long)
(((((double) reconDimensionX) * reconDimensionY * ((double) reconDimensionZ) * 4)
+ (((double)
Configuration.getGlobalConfiguration().getGeometry().getDetectorHeight())
* Configuration.getGlobalConfiguration().getGeometry().getDetectorWidth()
* 4)));
if (debug) {
System.out.println("Total available Memory on OpenCL card:" + availableMemory);
System.out.println("Required Memory on OpenCL card:" + requiredMemory);
}
if (requiredMemory > availableMemory) {
nSteps = (int) OpenCLUtil.iDivUp(requiredMemory, availableMemory);
if (debug) System.out.println("Switching to large volume mode with nSteps = " + nSteps);
largeVolumeMode = true;
}
if (debug) {
// TODO replace
/*
CUdevprop prop = new CUdevprop();
JCudaDriver.cuDeviceGetProperties(prop, dev);
System.out.println(prop.toFormattedString());
*/
}
// create the computing kernel
kernelFunction = program.createCLKernel("backprojectKernel");
// create the reconstruction volume;
int memorysize = reconDimensionX * reconDimensionY * reconDimensionZ * 4;
if (largeVolumeMode) {
subVolumeZ = OpenCLUtil.iDivUp(reconDimensionZ, nSteps);
if (debug) System.out.println("SubVolumeZ: " + subVolumeZ);
h_volume = new float[reconDimensionX * reconDimensionY * subVolumeZ];
memorysize = reconDimensionX * reconDimensionY * subVolumeZ * 4;
if (debug) System.out.println("Memory: " + memorysize);
} else {
h_volume = new float[reconDimensionX * reconDimensionY * reconDimensionZ];
}
// compute adapted volume size
// volume size in x = multiple of bpBlockSize[0]
// volume size in y = multiple of bpBlockSize[1]
int adaptedVolSize[] = new int[3];
if ((reconDimensionX % bpBlockSize[0]) == 0) {
adaptedVolSize[0] = reconDimensionX;
} else {
adaptedVolSize[0] = ((reconDimensionX / bpBlockSize[0]) + 1) * bpBlockSize[0];
}
if ((reconDimensionY % bpBlockSize[1]) == 0) {
adaptedVolSize[1] = reconDimensionY;
} else {
adaptedVolSize[1] = ((reconDimensionY / bpBlockSize[1]) + 1) * bpBlockSize[1];
}
adaptedVolSize[2] = reconDimensionZ;
int volStrideHost[] = new int[2];
// compute volstride and copy it to constant memory
volStrideHost[0] = adaptedVolSize[0];
volStrideHost[1] = adaptedVolSize[0] * adaptedVolSize[1];
// copy volume to device
volumePointer = context.createFloatBuffer(h_volume.length, Mem.WRITE_ONLY);
volumePointer.getBuffer().put(h_volume);
volumePointer.getBuffer().rewind();
// copy volume stride to device
volStride = context.createIntBuffer(volStrideHost.length, Mem.READ_ONLY);
volStride.getBuffer().put(volStrideHost);
volStride.getBuffer().rewind();
commandQueue.putWriteBuffer(volumePointer, true).putWriteBuffer(volStride, true).finish();
initialized = true;
}
}
public Grid2D openCLBackprojection(
OpenCLGrid2D filteredSinogramm,
int widthPhantom,
int heightPhantom,
int worksize,
float detectorSpacing,
int numberOfPixel,
int numberProjections,
float scanAngle,
double[] spacing,
double[] origin) {
// create context
CLContext context = OpenCLUtil.getStaticContext();
// select device
CLDevice device = context.getMaxFlopsDevice();
// define local and global sizes
double spacingAngle = (double) (scanAngle / numberProjections);
double originDetector = -(detectorSpacing * numberOfPixel) / 2.0;
int imageSize = widthPhantom * heightPhantom;
int localWorkSize = Math.min(device.getMaxWorkGroupSize(), worksize);
int globalWorkSizeW =
OpenCLUtil.roundUp(
localWorkSize, widthPhantom); // rounded up to the nearest multiple of localWorkSize
int globalWorkSizeH = OpenCLUtil.roundUp(localWorkSize, heightPhantom);
// load sources, create and build programm
try {
this.program =
context.createProgram(this.getClass().getResourceAsStream("exercise4.cl")).build();
} catch (IOException e) {
// TODO Auto-generated catch block
e.printStackTrace();
System.exit(-1);
}
// create image from input grid
// CLImageFormat format = new CLImageFormat(ChannelOrder.INTENSITY, ChannelType.FLOAT);
// create output image
CLBuffer<FloatBuffer> output = context.createFloatBuffer(imageSize, Mem.WRITE_ONLY);
if (kernel == null) {
kernel = program.createCLKernel("parallelBackProjection");
}
// createCommandQueue
CLCommandQueue queue = device.createCommandQueue();
filteredSinogramm.getDelegate().prepareForDeviceOperation();
// put memory on the graphics card
kernel
.putArg(filteredSinogramm.getDelegate().getCLBuffer())
.putArg(output)
.putArg(numberProjections)
.putArg(numberOfPixel)
.putArg(scanAngle)
.putArg(widthPhantom)
.putArg(heightPhantom)
.putArg(spacing[0])
.putArg(spacing[1])
.putArg(origin[0])
.putArg(origin[1])
.putArg(detectorSpacing)
.putArg(spacingAngle)
.putArg(originDetector)
.putArg(0.d);
kernel.rewind();
queue
.put2DRangeKernel(
kernel, 0, 0, globalWorkSizeW, globalWorkSizeH, localWorkSize, localWorkSize)
.putBarrier()
.finish();
// put memory from graphic card to host
queue.putReadBuffer(output, true).finish();
output.getBuffer().rewind();
for (int i = 0; i < image.getSize()[1]; ++i) {
for (int j = 0; j < image.getSize()[0]; j++) {
image.setAtIndex(j, i, output.getBuffer().get());
}
}
output.release();
queue.release();
return image;
}