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stim/visualization/colormap.h 10.7 KB
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  #ifndef STIM_COLORMAP_H
  #define STIM_COLORMAP_H
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  #include <string>
  #include <stdlib.h>
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  #include <cmath>
  
  #ifdef _WIN32
  	#include <float.h>
  #endif
  
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  #ifdef __CUDACC__
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  #include <stim/cuda/cudatools/error.h>
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  #endif
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  //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)
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  #include <stim/image/image.h>
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  #define BREWER_CTRL_PTS 11
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  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};
  
  
  #ifdef __CUDACC__
  texture<float4, cudaTextureType1D> cudaTexBrewer;
  static cudaArray* gpuBrewer;
  #endif
  
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  namespace stim{
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  enum colormapType {cmBrewer, cmGrayscale, cmRainbow};
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  static void buffer2image(unsigned char* buffer, std::string filename, size_t width, size_t height)
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  {
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  	/*unsigned char* non_interleaved = (unsigned char*)malloc(x_size * y_size * 3);
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  	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];
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  	}*/
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  	//create an image object
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  	//cimg_library::CImg<unsigned char> image(non_interleaved, x_size, y_size, 1, 3);
  	//image.save(filename.c_str());
      image<unsigned char> I;
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      I.set_interleaved_rgb(buffer, width, height);
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  	I.save(filename);
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  }
  
  #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));
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  }
  
  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);
  
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      //compensate for the additional space at the edges
      a *= (T)(BREWER_CTRL_PTS - 1)/(T)(BREWER_CTRL_PTS);
  
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  	//lookup the color
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  	float shift = (T)1/(2*BREWER_CTRL_PTS);
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  	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
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  	if(a > 1)
          a = 1;
      if(a < 0)
          a = 0;
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  	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);
  	//int gridDim = (nVals + blockDim - 1)/blockDim;
  	if(cm == cmGrayscale)
  		applyGrayscale<<<dimGrid, blockDim>>>(gpuSource, gpuDest, nVals, minVal, maxVal);
  	else if(cm == cmBrewer)
  	{
  		initBrewer();
  		applyBrewer<<<dimGrid, blockDim>>>(gpuSource, gpuDest, nVals, minVal, maxVal);
  		//HANDLE_ERROR(cudaMemset(gpuDest, 0, sizeof(unsigned char) * nVals * 3));
  		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 ));
  
  	//HANDLE_ERROR(cudaMemset(gpuSource, 0, sizeof(T) * nVals));
  
      //create the image on the gpu
      gpu2gpu(gpuSource, gpuDest, nVals, minVal, maxVal, cm);
  
  	//HANDLE_ERROR(cudaMemset(gpuDest, 0, sizeof(unsigned char) * nVals * 3));
  
      //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);
  }
  
  #endif
  
  template<class T>
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  static void cpuApplyBrewer(T* cpuSource, unsigned char* cpuDest, size_t N, T minVal = 0, T maxVal = 1)
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  {
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      for(size_t i=0; i<N; i++)
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      {
          //compute the normalized value on [minVal maxVal]
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  		float a;
  		if(minVal != maxVal)
  			a = (cpuSource[i] - minVal) / (maxVal - minVal);
  		else
  			a = 0.5;
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  #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;
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          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
          {
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              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;
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          }
  
  
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          cpuDest[i * 3 + 0] = (unsigned char)(255 * r);
          cpuDest[i * 3 + 1] = (unsigned char)(255 * g);
          cpuDest[i * 3 + 2] = (unsigned char)(255 * b);
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      }
  }
  
  template<class T>
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  static void cpu2cpu(T* cpuSource, unsigned char* cpuDest, size_t nVals, T valMin, T valMax, colormapType cm = cmGrayscale)
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  {
  
      if(cm == cmBrewer)
          cpuApplyBrewer(cpuSource, cpuDest, nVals, valMin, valMax);
      else if(cm == cmGrayscale)
      {
          int i;
          float a;
          float range = valMax - valMin;
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          for(i = 0; i<nVals; i++)
          {
              //normalize to the range [valMin valMax]
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  			if(range != 0)
  				a = (cpuSource[i] - valMin) / range;
  			else
  				a = 0.5;
  	
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              if(a < 0) a = 0;
              if(a > 1) a = 1;
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              cpuDest[i * 3 + 0] = (unsigned char)(255 * a);
              cpuDest[i * 3 + 1] = (unsigned char)(255 * a);
              cpuDest[i * 3 + 2] = (unsigned char)(255 * a);
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          }
      }
  }
  
  template<class T>
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  static void cpu2cpu(T* cpuSource, unsigned char* cpuDest, unsigned long long nVals, colormapType cm = cmGrayscale)
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  {
      //computes the max and min range automatically
  
      //find the largest magnitude value
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      T maxVal = cpuSource[0];
      T minVal = cpuSource[0];
      for(int i=1; i<nVals; i++)
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  	{
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          if(cpuSource[i] > maxVal)
              maxVal = cpuSource[i];
          if(cpuSource[i] < minVal)
              minVal = cpuSource[i];
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  	}
  
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      cpu2cpu(cpuSource, cpuDest, nVals, minVal, maxVal, cm);
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  }
  
  
  
  template<typename T>
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  static void cpu2image(T* cpuSource, std::string fileDest, size_t x_size, size_t y_size, T valMin, T valMax, colormapType cm = cmGrayscale)
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  {
      //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>
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  static void cpu2image(T* cpuSource, std::string fileDest, size_t x_size, size_t y_size, colormapType cm = cmGrayscale)
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  {
      //allocate a color buffer
  	unsigned char* cpuBuffer = (unsigned char*) malloc(sizeof(unsigned char) * 3 * x_size * y_size);
  
  	//do the mapping
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  	cpu2cpu<T>(cpuSource, cpuBuffer, x_size * y_size, cm);
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  	//copy the buffer to an image
  	buffer2image(cpuBuffer, fileDest, x_size, y_size);
  
  	free(cpuBuffer);
  
  }
  
  }	//end namespace colormap and rts
  
  #endif