source: trunk/src/ATrous/atrous_transform.cc @ 1007

#include <iostream>
#include <math.h>
#include <duchamp/param.hh>
#include <duchamp/ATrous/atrous.hh>
#include <duchamp/Utils/utils.hh>
#include <duchamp/Devel/devel.hh>

namespace duchamp{

  /***********************************************************************/
  /////  1-DIMENSIONAL TRANSFORM
  /***********************************************************************/

  // template <class T>
  // void atrousTransform(long &length, T *&spectrum, T *&coeffs, T *&wavelet)
  // {
  //   int filterHW = filterwidth/2;
  //   int numScales = getNumScales(length);

  //   delete [] coeffs;
  //   coeffs = new T[(numScales+1)*length];
  //   delete [] wavelet;
  //   wavelet = new T[(numScales+1)*length];
  //   for(int i=0;i<length;i++)  coeffs[i] = wavelet[i] = spectrum[i];

  //   int spacing = 1;
  //   for(int scale = 0; scale<numScales; scale++){

  //     for(int pos = 0; pos<length; pos++){
  //       coeffs[(scale+1)*length+pos] = 0;
  //       for(int offset=-filterHW; offset<=filterHW; offset++){
  //    int x = pos + spacing*offset;
  //    if(x<0) x = -x;                    // boundary conditions are 
  //    if(x>=length) x = 2*(length-1) - x;    //    reflection.
  // //         if(x<0) x = x+length;                // boundary conditions are 
  // //         if(x>=length) x = x-length;            //    continuous.

  //    coeffs[(scale+1)*length+pos] += filter1D[offset+filterHW] * 
  //      coeffs[scale*length+x];
  //       }
  //       wavelet[(scale+1)*length+pos] = coeffs[scale*length+pos] - 
  //    coeffs[(scale+1)*length+pos];
  //     }

  //     spacing *= 2;

  //   }

  // }

  
  void atrousTransform(unsigned long &length, int &numScales, float *spectrum, double *coeffs, double *wavelet, duchamp::Param &par)
  {
    duchamp::Filter reconFilter = par.filter();
    int filterHW = reconFilter.width()/2;

    for(int i=0;i<length;i++)  coeffs[i] = wavelet[i] = spectrum[i];

    int spacing = 1;
    for(int scale = 0; scale<numScales; scale++){

      for(int pos = 0; pos<length; pos++){
        coeffs[(scale+1)*length+pos] = 0;
        for(int offset=-filterHW; offset<=filterHW; offset++){
          int x = pos + spacing*offset;
          if(x<0) x = -x;                    // boundary conditions are 
          if(x>=length) x = 2*(length-1) - x;    //    reflection.
          //    if(x<0) x = x+length;                // boundary conditions are 
          //    if(x>=length) x = x-length;            //    continuous.

          //    coeffs[(scale+1)*length+pos] += filter1D[offset+filterHW] * 
          //      coeffs[scale*length+x];
          coeffs[(scale+1)*length+pos] += reconFilter.coeff(offset+filterHW) * 
            coeffs[scale*length+x];
        }
        wavelet[(scale+1)*length+pos] = coeffs[scale*length+pos] - 
          coeffs[(scale+1)*length+pos];
      }

      spacing *= 2;

    }

  }

  void atrousTransform(unsigned long &length, float *spectrum, float *coeffs, float *wavelet, duchamp::Param &par)
  {
    duchamp::Filter reconFilter = par.filter();
    int filterHW = reconFilter.width()/2;
    int numScales = reconFilter.getNumScales(length);

    delete [] coeffs;
    coeffs = new float[(numScales+1)*length];
    delete [] wavelet;
    wavelet = new float[(numScales+1)*length];
    for(int i=0;i<length;i++) coeffs[i] = wavelet[i] = spectrum[i];

    int spacing = 1;
    for(int scale = 0; scale<numScales; scale++){

      for(int pos = 0; pos<length; pos++){
        coeffs[(scale+1)*length+pos] = 0;
        for(int offset=-filterHW; offset<=filterHW; offset++){
          int x = pos + spacing*offset;
          if(x<0) x = -x;                    // boundary conditions are 
          if(x>=length) x = 2*(length-1) - x;    //    reflection.
          //    if(x<0) x = x+length;                // boundary conditions are 
          //    if(x>=length) x = x-length;            //    continuous.

          //    coeffs[(scale+1)*length+pos] += filter1D[offset+filterHW] * 
          //      coeffs[scale*length+x];
          coeffs[(scale+1)*length+pos] += reconFilter.coeff(offset+filterHW) * 
            coeffs[scale*length+x];
        }
        wavelet[(scale+1)*length+pos] = coeffs[scale*length+pos] - 
          coeffs[(scale+1)*length+pos];
      }

      spacing *= 2;

    }

  }




  /***********************************************************************/
  /////  2-DIMENSIONAL TRANSFORM
  /***********************************************************************/

  void atrousTransform2D(long &xdim, long &ydim, int &numScales, float *input, double *coeffs, double *wavelet, duchamp::Param &par)
  {
    duchamp::Filter reconFilter = par.filter();
    float blankPixValue = par.getBlankPixVal();
    int filterHW = reconFilter.width()/2;

    double *filter = new double[reconFilter.width()*reconFilter.width()];
    for(int i=0;i<reconFilter.width();i++){
      for(int j=0;j<reconFilter.width();j++){
        filter[i*reconFilter.width()+j] = reconFilter.coeff(i) * reconFilter.coeff(j);
      }
    }

    long size = xdim * ydim;
    float *oldcoeffs = new float[size];

    // locating the borders of the image -- ignoring BLANK pixels
    //   int xLim1=0, yLim1=0, xLim2=xdim-1, yLim2=ydim-1;
    //   for(int row=0;row<ydim;row++){
    //     while((xLim1<xLim2)&&(input[row*xdim+xLim1]==blankPixValue)) xLim1++;
    //     while((xLim2>xLim1)&&(input[row*xdim+xLim1]==blankPixValue)) xLim2--;
    //   }
    //   for(int col=0;col<xdim;col++){
    //     while((yLim1<yLim2)&&(input[col+xdim*yLim1]==blankPixValue)) yLim1++;
    //     while((yLim2>yLim1)&&(input[col+xdim*yLim1]==blankPixValue)) yLim2--;
    //   }
    //   std::cerr << "X Limits: "<<xLim1<<" "<<xLim2<<std::endl;
    //   std::cerr << "Y Limits: "<<yLim1<<" "<<yLim2<<std::endl;
  
    int *xLim1 = new int[ydim];
    int *yLim1 = new int[xdim];
    int *xLim2 = new int[ydim];
    int *yLim2 = new int[xdim];
    for(int row=0;row<ydim;row++){
      int ct1 = 0;
      int ct2 = xdim - 1;
      while((ct1<ct2)&&(input[row*xdim+ct1]==blankPixValue) ) ct1++;
      while((ct2>ct1)&&(input[row*xdim+ct2]==blankPixValue) ) ct2--;
      xLim1[row] = ct1;
      xLim2[row] = ct2;
      std::cerr<<row<<":"<<xLim1[row]<<","<<xLim2[row]<<" ";
    }
    std::cerr<<std::endl;

    for(int col=0;col<xdim;col++){
      int ct1=0;
      int ct2=ydim-1;
      while((ct1<ct2)&&(input[col+xdim*ct1]==blankPixValue) ) ct1++;
      while((ct2>ct1)&&(input[col+xdim*ct2]==blankPixValue) ) ct2--;
      yLim1[col] = ct1;
      yLim2[col] = ct2;
    }


    bool *isGood = new bool[size];
    for(int pos=0;pos<size;pos++) //isGood[pos] = (!flagBlank) || (input[pos]!=blankPixValue);
      isGood[pos] = !par.isBlank(input[pos]);

    for(int i=0;i<size;i++)  coeffs[i] = wavelet[i] = input[i];

    int spacing = 1;
    for(int scale = 0; scale<numScales; scale++){

      for(int i=0;i<size;i++) oldcoeffs[i] = coeffs[i];

      //std::cerr << numScales<<" "<<scale<<" "<<spacing<<" "<<reconFilter.width()*spacing<<std::endl;
      for(int ypos = 0; ypos<ydim; ypos++){
        for(int xpos = 0; xpos<xdim; xpos++){
          // loops over each pixel in the image
          int pos = ypos*xdim + xpos;
          coeffs[pos] = 0;

          //    if((par.getFlagBlankPix())&&(oldcoeffs[pos] == blankPixValue) )
          if(par.isBlank(oldcoeffs[pos]) )
            coeffs[pos] = oldcoeffs[pos];
          else{
            for(int yoffset=-filterHW; yoffset<=filterHW; yoffset++){
              int y = ypos + spacing*yoffset;
              int newy;
              //          if(y<0) y = -y;                 // boundary conditions are 
              //          if(y>=ydim) y = 2*(ydim-1) - y; //    reflection.
              //          while((y<yLim1)||(y>yLim2)){
              //            if(y<yLim1) y = 2*yLim1 - y;      // boundary conditions are 
              //            if(y>yLim2) y = 2*yLim2 - y;      //    reflection.
              //          }
              // boundary conditions are reflection.
          
              for(int xoffset=-filterHW; xoffset<=filterHW; xoffset++){
                int x = xpos + spacing*xoffset;
                int newx;
                //if(x<0) x = -x;                 // boundary conditions are 
                // if(x>=xdim) x = 2*(xdim-1) - x; //    reflection.
                //while((x<xLim1)||(x>xLim2)){
                //            if(x<xLim1) x = 2*xLim1 - x;      // boundary conditions are 
                //            if(x>xLim2) x = 2*xLim2 - x;      //    reflection.
                //          }
                // boundary conditions are reflection.
                if(y<yLim1[xpos]) newy = 2*yLim1[xpos] - y;      
                else if(y>yLim2[xpos]) newy = 2*yLim2[xpos] - y;      
                else newy = y;
                if(x<xLim1[ypos]) newx = 2*xLim1[ypos] - x;
                else if(x>xLim2[ypos]) newx = 2*xLim2[ypos] - x;      
                else newx=x;      
              
                x = newx;
                y = newy;

                int filterpos = (yoffset+filterHW)*reconFilter.width() + (xoffset+filterHW);
                int oldpos = y*xdim + x;

                if(// (x>=0)&&(x<xdim)&&(y>=0)&&(y<ydim)&&
                   (isGood[pos]))
                  coeffs[pos] += filter[filterpos] * oldcoeffs[oldpos];
              }
            }
      
          }
          wavelet[(scale+1)*size+pos] = oldcoeffs[pos] - coeffs[pos];


        }
      }
 
      spacing *= 2;

    }

    delete [] filter;
    delete [] oldcoeffs;

  }

  // void atrousTransform2D(long &xdim, long &ydim, int &numScales, float *input, double *coeffs, double *wavelet)
  // {
  //   Filter reconFilter = par.filter();
  //   int filterHW = reconFilter.width()/2;

  //   double *filter = new double[reconFilter.width()*reconFilter.width()];
  //   for(int i=0;i<reconFilter.width();i++){
  //     for(int j=0;j<reconFilter.width();j++){
  //       filter[i*reconFilter.width()+j] = reconFilter.coeff(i) * reconFilter.coeff(j);
  //     }
  //   }

  //   long size = xdim * ydim;
  //   float *oldcoeffs = new float[size];

  //   for(int i=0;i<size;i++)  coeffs[i] = wavelet[i] = input[i];

  
  //   int spacing = 1;
  //   for(int scale = 0; scale<numScales; scale++){

  //     for(int i=0;i<size;i++) oldcoeffs[i] = coeffs[i];

  //     std::cerr << numScales<<" "<<scale<<" "<<spacing<<std::endl;
  //     for(int ypos = 0; ypos<ydim; ypos++){
  //       for(int xpos = 0; xpos<xdim; xpos++){
  //    // loops over each pixel in the image
  //    int pos = ypos*xdim + xpos;
  //    coeffs[pos] = 0;

  //    for(int yoffset=-filterHW; yoffset<=filterHW; yoffset++){
  //      int y = ypos + spacing*yoffset;
  //      if(y<0) y = -y;                 // boundary conditions are 
  //      if(y>=ydim) y = 2*(ydim-1) - y; //    reflection.
          
  //      for(int xoffset=-filterHW; xoffset<=filterHW; xoffset++){
  //        int x = xpos + spacing*xoffset;
  //        if(x<0) x = -x;                 // boundary conditions are 
  //        if(x>=xdim) x = 2*(xdim-1) - x; //    reflection.

  //        int filterpos = (yoffset+filterHW)*reconFilter.width() + (xoffset+filterHW);
  //        int oldpos = y*xdim + x;
  //        coeffs[pos] += filter[filterpos] * oldcoeffs[oldpos];
  //      }
  //    }
       
  //    wavelet[(scale+1)*size+pos] = oldcoeffs[pos] - coeffs[pos];

  //       }
  //     }
 
  //     spacing *= 2;

  //   }

  //   delete [] filter;
  //   delete [] oldcoeffs;

  // }

  /***********************************************************************/
  /////  3-DIMENSIONAL TRANSFORM
  /***********************************************************************/

  void atrousTransform3D(long &xdim, long &ydim, long &zdim, int &numScales, float *&input, float *&coeffs, float *&wavelet, duchamp::Param &par)
  {
    duchamp::Filter reconFilter = par.filter();
    float blankPixValue = par.getBlankPixVal();
    int filterHW = reconFilter.width()/2;

    long size = xdim * ydim * zdim;
    float *oldcoeffs = new float[size];

    std::cerr << "%";
    int fsize = reconFilter.width()*reconFilter.width()*reconFilter.width();
    std::cerr << "%";
    double *filter = new double[fsize];
    for(int i=0;i<reconFilter.width();i++){
      for(int j=0;j<reconFilter.width();j++){
        for(int k=0;k<reconFilter.width();k++){
          filter[i +j*reconFilter.width() + k*reconFilter.width()*reconFilter.width()] = 
            reconFilter.coeff(i) * reconFilter.coeff(j) * reconFilter.coeff(k);
        }
      }
    }
    // locating the borders of the image -- ignoring BLANK pixels
    // HAVE NOT DONE THIS FOR Z --> ASSUMING NO TRIMMING IN SPECTRAL DIRECTION
    int xLim1 = 0, yLim1 = 0, xLim2 = xdim-1, yLim2 = ydim-1;
    for(int col=0;col<xdim;col++){
      while((yLim1<yLim2)&&(input[col+xdim*yLim1]==blankPixValue) ) yLim1++;
      while((yLim2>yLim1)&&(input[col+xdim*yLim1]==blankPixValue) ) yLim2--;
    }
    for(int row=0;row<ydim;row++){
      while((xLim1<xLim2)&&(input[row*xdim+xLim1]==blankPixValue) ) xLim1++;
      while((xLim2>xLim1)&&(input[row*xdim+xLim1]==blankPixValue) ) xLim2--;
    }

    for(int i=0;i<size;i++)  coeffs[i] = wavelet[i] = input[i];

    int spacing = 1;
    std::cerr<<xdim<<"x"<<ydim<<"x"<<zdim<<"x"<<numScales;
    for(int scale = 0; scale<numScales; scale++){
      std::cerr << ".";
      for(int i=0;i<size;i++) oldcoeffs[i] = coeffs[i];

      for(int zpos = 0; zpos<zdim; zpos++){
        for(int ypos = 0; ypos<ydim; ypos++){
          for(int xpos = 0; xpos<xdim; xpos++){
            // loops over each pixel in the image
            int pos = zpos*xdim*ydim + ypos*xdim + xpos;
            coeffs[pos] = 0;

            if(par.isBlank(oldcoeffs[pos]) )
              coeffs[pos] = oldcoeffs[pos];
            else{
              for(int zoffset=-filterHW; zoffset<=filterHW; zoffset++){
                int z = zpos + spacing*zoffset;
                if(z<0) z = -z;                 // boundary conditions are 
                if(z>=zdim) z = 2*(zdim-1) - z; //    reflection.
          
                for(int yoffset=-filterHW; yoffset<=filterHW; yoffset++){
                  int y = ypos + spacing*yoffset;
                  //if(y<0) y = -y;                 // boundary conditions are 
                  // if(y>=ydim) y = 2*(ydim-1) - y; //    reflection.
                  if(y<yLim1) y = 2*yLim1 - y;      // boundary conditions are 
                  if(y>yLim2) y = 2*yLim2 - y;      //    reflection.
          
                  for(int xoffset=-filterHW; xoffset<=filterHW; xoffset++){
                    int x = xpos + spacing*xoffset;
                    //if(x<0) x = -x;                 // boundary conditions are 
                    //if(x>=xdim) x = 2*(xdim-1) - x; //    reflection.
                    if(x<xLim1) x = 2*xLim1 - x;      // boundary conditions are 
                    if(x>xLim2) x = 2*xLim2 - x;      //    reflection.

                    int filterpos = (zoffset+filterHW)*reconFilter.width()*reconFilter.width() + 
                      (yoffset+filterHW)*reconFilter.width() + (xoffset+filterHW);
                    int oldpos = z*xdim*ydim + y*xdim + x;

                    if(!par.isBlank(oldcoeffs[oldpos]))
                      coeffs[pos] += filter[filterpos] * oldcoeffs[oldpos];

                  }
                }
              }
            }           
 
            wavelet[(scale+1)*size+pos] = oldcoeffs[pos] - coeffs[pos];

          }
        }
      }
 
      spacing *= 2;

    }
    std::cerr << "|";

    delete [] filter;
    delete [] oldcoeffs;

  }


  // void atrousTransform3D(long &xdim, long &ydim, long &zdim, int &numScales, float *input, float *coeffs, float *wavelet)
  // {
  //   extern Filter reconFilter;
  //   int filterHW = reconFilter.width()/2;

  //   long size = xdim * ydim * zdim;
  //   float *oldcoeffs = new float[size];

  //   std::cerr << "%";
  //   int fsize = reconFilter.width()*reconFilter.width()*reconFilter.width();
  //   std::cerr << "%";
  //   double *filter = new double[fsize];
  //   for(int i=0;i<reconFilter.width();i++){
  //     for(int j=0;j<reconFilter.width();j++){
  //       for(int k=0;k<reconFilter.width();k++){
  //       filter[i +j*reconFilter.width() + k*reconFilter.width()*reconFilter.width()] = 
  //    reconFilter.coeff(i) * reconFilter.coeff(j) * reconFilter.coeff(k);
  //       }
  //     }
  //   }

  //   for(int i=0;i<size;i++)  coeffs[i] = wavelet[i] = input[i];

  //   int spacing = 1;
  //   std::cerr<<xdim<<"x"<<ydim<<"x"<<zdim<<"x"<<numScales;
  //   for(int scale = 0; scale<numScales; scale++){
  //     std::cerr << ".";
  //     for(int i=0;i<size;i++) oldcoeffs[i] = coeffs[i];

  //     for(int zpos = 0; zpos<zdim; zpos++){
  //       for(int ypos = 0; ypos<ydim; ypos++){
  //    for(int xpos = 0; xpos<xdim; xpos++){
  //      // loops over each pixel in the image
  //      int pos = zpos*xdim*ydim + ypos*xdim + xpos;
  //      coeffs[pos] = 0;

  //      for(int zoffset=-filterHW; zoffset<=filterHW; zoffset++){
  //        int z = zpos + spacing*zoffset;
  //        if(z<0) z = -z;                 // boundary conditions are 
  //        if(z>=zdim) z = 2*(zdim-1) - z; //    reflection.
          
  //        for(int yoffset=-filterHW; yoffset<=filterHW; yoffset++){
  //          int y = ypos + spacing*yoffset;
  //          if(y<0) y = -y;                 // boundary conditions are 
  //          if(y>=ydim) y = 2*(ydim-1) - y; //    reflection.
          
  //          for(int xoffset=-filterHW; xoffset<=filterHW; xoffset++){
  //            int x = xpos + spacing*xoffset;
  //            if(x<0) x = -x;                 // boundary conditions are 
  //            if(x>=xdim) x = 2*(xdim-1) - x; //    reflection.

  //            int filterpos = (zoffset+filterHW)*reconFilter.width()*reconFilter.width() + 
  //              (yoffset+filterHW)*reconFilter.width() + (xoffset+filterHW);
  //            int oldpos = z*xdim*ydim + y*xdim + x;

  //            coeffs[pos] += filter[filterpos] * oldcoeffs[oldpos];

  //          }
  //        }
  //      }
                
  //      wavelet[(scale+1)*size+pos] = oldcoeffs[pos] - coeffs[pos];

  //    }
  //       }
  //     }
 
  //     spacing *= 2;

  //   }
  //   std::cerr << "|";

  //   delete [] filter;
  //   delete [] oldcoeffs;

  // }


}