ce6381d7
 David Mayerich
updating to TIRA
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#ifndef STIM_COLORMAP_H
#define STIM_COLORMAP_H
#include <string>
#include <stdlib.h>
#include <cmath>
#ifdef _WIN32
#include <float.h>
#endif
#ifdef __CUDACC__
#include "cublas_v2.h"
#include <stim/cuda/cudatools/error.h>
#endif
//saving an image to a file uses the CImg library
//this currently throws a lot of "unreachable" warnings (as of GCC 4.8.2, nvcc 6.5.12)
#include <stim/image/image.h>
#define BREWER_CTRL_PTS 11
static float BREWERCP[BREWER_CTRL_PTS*4] = {0.192157f, 0.211765f, 0.584314f, 1.0f,
0.270588f, 0.458824f, 0.705882f, 1.0f,
0.454902f, 0.678431f, 0.819608f, 1.0f,
0.670588f, 0.85098f, 0.913725f, 1.0f,
0.878431f, 0.952941f, 0.972549f, 1.0f,
1.0f, 1.0f, 0.74902f, 1.0f,
0.996078f, 0.878431f, 0.564706f, 1.0f,
0.992157f, 0.682353f, 0.380392f, 1.0f,
0.956863f, 0.427451f, 0.262745f, 1.0f,
0.843137f, 0.188235f, 0.152941f, 1.0f,
0.647059f, 0.0f, 0.14902f, 1.0f};
//static float BREWERCP[BREWER_CTRL_PTS * 4] = { 0.192157f, 0.584314f, 0.211765f, 1.0f,
// 0.270588f, 0.705882f, 0.458824f, 1.0f,
// 0.454902f, 0.819608f, 0.678431f, 1.0f,
// 0.670588f, 0.913725f, 0.85098f, 1.0f,
// 0.878431f, 0.972549f, 0.952941f, 1.0f,
// 1.0f, 0.74902f, 1.0f, 1.0f,
// 0.996078f, 0.878431f, 0.564706f, 1.0f,
// 0.992157f, 0.682353f, 0.380392f, 1.0f,
// 0.956863f, 0.427451f, 0.262745f, 1.0f,
// 0.843137f, 0.188235f, 0.152941f, 1.0f,
// 0.647059f, 0.0f, 0.14902f, 1.0f };
//static float BREWERCP[BREWER_CTRL_PTS * 4] = { 0.0f, 0.407843f, 0.215686f, 1.0f,
// 0.101960f, 0.596078f, 0.313725f, 1.0f,
// 0.4f, 0.741176f, 0.388235f, 1.0f,
// 0.650980f, 0.850980f, 0.415686f, 1.0f,
// 0.850980f, 0.937254f, 0.545098f, 1.0f,
// 1.0f, 1.0f, 0.749019f, 1.0f,
// 0.996078f, 0.878431f, 0.545098f, 1.0f,
// 0.992156f, 0.682352f, 0.380392f, 1.0f,
// 0.956862f, 0.427450f, 0.262745f, 1.0f,
// 0.843137f, 0.188235f, 0.152941f, 1.0f,
// 0.647058f, 0.0f, 0.149019f, 1.0f };
#ifdef __CUDACC__
texture<float4, cudaTextureType1D> cudaTexBrewer;
static cudaArray* gpuBrewer;
#endif
namespace stim{
enum colormapType {cmBrewer, cmGrayscale, cmRainbow};
static void buffer2image(unsigned char* buffer, std::string filename, size_t width, size_t height)
{
/*unsigned char* non_interleaved = (unsigned char*)malloc(x_size * y_size * 3);
unsigned int S = x_size * y_size;
for(unsigned int i = 0; i < S; i++){
non_interleaved[i + 0 * S] = buffer[i * 3 + 0];
non_interleaved[i + 1 * S] = buffer[i * 3 + 1];
non_interleaved[i + 2 * S] = buffer[i * 3 + 2];
}*/
//create an image object
//cimg_library::CImg<unsigned char> image(non_interleaved, x_size, y_size, 1, 3);
//image.save(filename.c_str());
image<unsigned char> I;
I.set_interleaved_rgb(buffer, width, height);
I.save(filename);
}
#ifdef __CUDACC__
static void initBrewer()
{
//initialize the Brewer colormap
//allocate CPU space
float4 cpuColorMap[BREWER_CTRL_PTS];
//define control rtsPoints
cpuColorMap[0] = make_float4(0.192157f, 0.211765f, 0.584314f, 1.0f);
cpuColorMap[1] = make_float4(0.270588f, 0.458824f, 0.705882f, 1.0f);
cpuColorMap[2] = make_float4(0.454902f, 0.678431f, 0.819608f, 1.0f);
cpuColorMap[3] = make_float4(0.670588f, 0.85098f, 0.913725f, 1.0f);
cpuColorMap[4] = make_float4(0.878431f, 0.952941f, 0.972549f, 1.0f);
cpuColorMap[5] = make_float4(1.0f, 1.0f, 0.74902f, 1.0f);
cpuColorMap[6] = make_float4(0.996078f, 0.878431f, 0.564706f, 1.0f);
cpuColorMap[7] = make_float4(0.992157f, 0.682353f, 0.380392f, 1.0f);
cpuColorMap[8] = make_float4(0.956863f, 0.427451f, 0.262745f, 1.0f);
cpuColorMap[9] = make_float4(0.843137f, 0.188235f, 0.152941f, 1.0f);
cpuColorMap[10] = make_float4(0.647059f, 0.0f, 0.14902f, 1.0f);
int width = BREWER_CTRL_PTS;
int height = 0;
// allocate array and copy colormap data
cudaChannelFormatDesc channelDesc = cudaCreateChannelDesc(32, 32, 32, 32, cudaChannelFormatKindFloat);
HANDLE_ERROR(cudaMallocArray(&gpuBrewer, &channelDesc, width, height));
HANDLE_ERROR(cudaMemcpyToArray(gpuBrewer, 0, 0, cpuColorMap, sizeof(float4)*width, cudaMemcpyHostToDevice));
// set texture parameters
cudaTexBrewer.addressMode[0] = cudaAddressModeClamp;
//texBrewer.addressMode[1] = cudaAddressModeClamp;
cudaTexBrewer.filterMode = cudaFilterModeLinear;
cudaTexBrewer.normalized = true; // access with normalized texture coordinates
// Bind the array to the texture
HANDLE_ERROR(cudaBindTextureToArray( cudaTexBrewer, gpuBrewer, channelDesc));
}
static void destroyBrewer()
{
HANDLE_ERROR(cudaFreeArray(gpuBrewer));
}
template<class T>
__global__ static void applyBrewer(T* gpuSource, unsigned char* gpuDest, unsigned int N, T minVal = 0, T maxVal = 1)
{
int i = blockIdx.y * gridDim.x * blockDim.x + blockIdx.x * blockDim.x + threadIdx.x;
if(i >= N) return;
//compute the normalized value on [minVal maxVal]
float a = (gpuSource[i] - minVal) / (maxVal - minVal);
//compensate for the additional space at the edges
a *= (T)(BREWER_CTRL_PTS - 1)/(T)(BREWER_CTRL_PTS);
//lookup the color
float shift = (T)1/(2*BREWER_CTRL_PTS);
float4 color = tex1D(cudaTexBrewer, a+shift);
//float4 color = tex1D(cudaTexBrewer, a);
gpuDest[i * 3 + 0] = 255 * color.x;
gpuDest[i * 3 + 1] = 255 * color.y;
gpuDest[i * 3 + 2] = 255 * color.z;
}
template<class T>
__global__ static void applyGrayscale(T* gpuSource, unsigned char* gpuDest, unsigned int N, T minVal = 0, T maxVal = 1)
{
int i = blockIdx.y * gridDim.x * blockDim.x + blockIdx.x * blockDim.x + threadIdx.x;
if(i >= N) return;
//compute the normalized value on [minVal maxVal]
float a = (gpuSource[i] - minVal) / (maxVal - minVal);
//threshold
if(a > 1)
a = 1;
if(a < 0)
a = 0;
gpuDest[i * 3 + 0] = 255 * a;
gpuDest[i * 3 + 1] = 255 * a;
gpuDest[i * 3 + 2] = 255 * a;
}
template<class T>
static void gpu2gpu(T* gpuSource, unsigned char* gpuDest, unsigned int nVals, T minVal = 0, T maxVal = 1, colormapType cm = cmGrayscale, int blockDim = 128)
{
//This function converts a scalar field on the GPU to a color image on the GPU
int gridX = (nVals + blockDim - 1)/blockDim;
int gridY = 1;
if(gridX > 65535)
{
gridY = (gridX + 65535 - 1) / 65535;
gridX = 65535;
}
dim3 dimGrid(gridX, gridY);
if(cm == cmGrayscale)
applyGrayscale<<<dimGrid, blockDim>>>(gpuSource, gpuDest, nVals, minVal, maxVal);
else if(cm == cmBrewer)
{
initBrewer();
applyBrewer<<<dimGrid, blockDim>>>(gpuSource, gpuDest, nVals, minVal, maxVal);
destroyBrewer();
}
}
template<class T>
static void gpu2cpu(T* gpuSource, unsigned char* cpuDest, unsigned int nVals, T minVal, T maxVal, colormapType cm = cmGrayscale)
{
//this function converts a scalar field on the GPU to a color image on the CPU
//first create the color image on the GPU
//allocate GPU memory for the color image
unsigned char* gpuDest;
HANDLE_ERROR(cudaMalloc( (void**)&gpuDest, sizeof(unsigned char) * nVals * 3 ));
//create the image on the gpu
gpu2gpu(gpuSource, gpuDest, nVals, minVal, maxVal, cm);
//copy the image from the GPU to the CPU
HANDLE_ERROR(cudaMemcpy(cpuDest, gpuDest, sizeof(unsigned char) * nVals * 3, cudaMemcpyDeviceToHost));
HANDLE_ERROR(cudaFree( gpuDest ));
}
template<typename T>
static void gpu2image(T* gpuSource, std::string fileDest, unsigned int x_size, unsigned int y_size, T valMin, T valMax, colormapType cm = cmGrayscale)
{
//allocate a color buffer
unsigned char* cpuBuffer = NULL;
cpuBuffer = (unsigned char*) malloc(sizeof(unsigned char) * 3 * x_size * y_size);
//do the mapping
gpu2cpu<T>(gpuSource, cpuBuffer, x_size * y_size, valMin, valMax, cm);
//copy the buffer to an image
buffer2image(cpuBuffer, fileDest, x_size, y_size);
free(cpuBuffer);
}
/// save a GPU image to a file using automatic scaling
template<typename T>
static void gpu2image(T* gpuSource, std::string fileDest, unsigned int x_size, unsigned int y_size, colormapType cm = cmGrayscale){
size_t N = x_size * y_size; //calculate the total number of elements in the image
cublasStatus_t stat;
cublasHandle_t handle;
stat = cublasCreate(&handle); //create a cuBLAS handle
if (stat != CUBLAS_STATUS_SUCCESS){ //test for failure
printf ("CUBLAS initialization failed\n");
exit(1);
}
int i_min, i_max;
stat = cublasIsamin(handle, (int)N, gpuSource, 1, &i_min);
if (stat != CUBLAS_STATUS_SUCCESS){ //test for failure
printf ("CUBLAS Error: failed to calculate minimum r value.\n");
exit(1);
}
stat = cublasIsamax(handle, (int)N, gpuSource, 1, &i_max);
if (stat != CUBLAS_STATUS_SUCCESS){ //test for failure
printf ("CUBLAS Error: failed to calculate maximum r value.\n");
exit(1);
}
cublasDestroy(handle);
i_min--; //cuBLAS uses 1-based indexing for Fortran compatibility
i_max--;
T v_min, v_max; //allocate space to store the minimum and maximum values
HANDLE_ERROR( cudaMemcpy(&v_min, gpuSource + i_min, sizeof(T), cudaMemcpyDeviceToHost) ); //copy the min and max values from the device to the CPU
HANDLE_ERROR( cudaMemcpy(&v_max, gpuSource + i_max, sizeof(T), cudaMemcpyDeviceToHost) );
gpu2image<T>(gpuSource, fileDest, x_size, y_size, min(v_min, v_max), max(v_min, v_max), cm);
}
#endif
template<class T>
static void cpuApplyBrewer(T* cpuSource, unsigned char* cpuDest, size_t N, T minVal = 0, T maxVal = 1)
{
for(size_t i=0; i<N; i++)
{
//compute the normalized value on [minVal maxVal]
float a;
if(minVal != maxVal)
a = (cpuSource[i] - minVal) / (maxVal - minVal);
else
a = 0.5;
#ifdef _WIN32
if(!_finite(a)) a = 1; //deal with infinite and NaN values (return maximum in all cases)
#else
if(!std::isfinite(a)) a = 1;
#endif
else if(a < 0) a = 0;
else if(a > 1) a = 1;
float c = a * (float)(BREWER_CTRL_PTS-1);
int ptLow = (int)c;
float m = c - (float)ptLow;
//std::cout<<m<<std::endl;
float r, g, b;
if(ptLow == BREWER_CTRL_PTS - 1)
{
r = BREWERCP[ptLow * 4 + 0];
g = BREWERCP[ptLow * 4 + 1];
b = BREWERCP[ptLow * 4 + 2];
}
else
{
r = BREWERCP[ptLow * 4 + 0] * (1-m) + BREWERCP[ (ptLow+1) * 4 + 0] * m;
g = BREWERCP[ptLow * 4 + 1] * (1-m) + BREWERCP[ (ptLow+1) * 4 + 1] * m;
b = BREWERCP[ptLow * 4 + 2] * (1-m) + BREWERCP[ (ptLow+1) * 4 + 2] * m;
}
cpuDest[i * 3 + 0] = (unsigned char)(255 * r);
cpuDest[i * 3 + 1] = (unsigned char)(255 * g);
cpuDest[i * 3 + 2] = (unsigned char)(255 * b);
}
}
template<class T>
static void cpu2cpu(T* cpuSource, unsigned char* cpuDest, size_t nVals, T valMin, T valMax, colormapType cm = cmGrayscale)
{
if(cm == cmBrewer)
cpuApplyBrewer(cpuSource, cpuDest, nVals, valMin, valMax);
else if(cm == cmGrayscale)
{
int i;
float a;
float range = valMax - valMin;
for(i = 0; i<nVals; i++)
{
//normalize to the range [valMin valMax]
if(range != 0)
a = (cpuSource[i] - valMin) / range;
else
a = 0.5;
if(a < 0) a = 0;
if(a > 1) a = 1;
cpuDest[i * 3 + 0] = (unsigned char)(255 * a);
cpuDest[i * 3 + 1] = (unsigned char)(255 * a);
cpuDest[i * 3 + 2] = (unsigned char)(255 * a);
}
}
}
template<class T>
static void cpu2cpu(T* cpuSource, unsigned char* cpuDest, unsigned long long nVals, colormapType cm = cmGrayscale)
{
//computes the max and min range automatically
//find the largest magnitude value
T maxVal = cpuSource[0];
T minVal = cpuSource[0];
for(int i=1; i<nVals; i++)
{
if(cpuSource[i] > maxVal)
maxVal = cpuSource[i];
if(cpuSource[i] < minVal)
minVal = cpuSource[i];
}
cpu2cpu(cpuSource, cpuDest, nVals, minVal, maxVal, cm);
}
template<typename T>
static void cpu2image(T* cpuSource, std::string fileDest, size_t x_size, size_t y_size, T valMin, T valMax, colormapType cm = cmGrayscale)
{
//allocate a color buffer
unsigned char* cpuBuffer = (unsigned char*) malloc(sizeof(unsigned char) * 3 * x_size * y_size);
//do the mapping
cpu2cpu<T>(cpuSource, cpuBuffer, x_size * y_size, valMin, valMax, cm);
//copy the buffer to an image
buffer2image(cpuBuffer, fileDest, x_size, y_size);
free(cpuBuffer);
}
template<typename T>
static void cpu2image(T* cpuSource, std::string fileDest, size_t x_size, size_t y_size, colormapType cm = cmGrayscale)
{
//allocate a color buffer
unsigned char* cpuBuffer = (unsigned char*) malloc(sizeof(unsigned char) * 3 * x_size * y_size);
//do the mapping
cpu2cpu<T>(cpuSource, cpuBuffer, x_size * y_size, cm);
//copy the buffer to an image
buffer2image(cpuBuffer, fileDest, x_size, y_size);
free(cpuBuffer);
}
} //end namespace colormap and rts
#endif
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