source: trunk/src/GenericEdgeDetector.cpp@ 3123

//
// C++ Implimentation: GenericEdgeDetector
//
// Description:
//
//
// Author: Takeshi Nakazato <takeshi.nakazato@nao.ac.jp>, (C) 2012
//
// Copyright: See COPYING file that comes with this distribution
//
//
#include <math.h>
#include <limits.h>
#include <stdint.h>

#include <casa/Arrays/Vector.h>
#include <casa/Arrays/Matrix.h>
#include <casa/Arrays/ArrayMath.h>
#include <casa/Arrays/ArrayIO.h>
#include <casa/Utilities/GenSort.h>

#include <coordinates/Coordinates/DirectionCoordinate.h>

#include "GenericEdgeDetector.h"

using namespace std ;
using namespace casacore ;

namespace asap {

GenericEdgeDetector::GenericEdgeDetector() 
  : EdgeDetector()
{}

GenericEdgeDetector::~GenericEdgeDetector()
{}

Vector<uInt> GenericEdgeDetector::detect() 
{
  os_.origin(LogOrigin( "GenericEdgeDetector", "detect", WHERE )) ;

  initDetect() ;

  topixel() ;
  countup() ;
  thresholding() ;
  labeling() ;
  trimming() ;
  selection() ;
  tuning() ;

  os_ << LogIO::DEBUGGING
      << "Detected " << off_.nelements() << " integrations as OFF" << LogIO::POST ;  

  return off_ ;
}

void GenericEdgeDetector::parseOption( const Record &option ) 
{
  os_.origin(LogOrigin( "GenericEdgeDetector", "parseOption", WHERE )) ;

  String name = "fraction" ;
  if ( option.isDefined( name ) ) {
    if ( option.dataType( name ) == TpString ) {
      // should be "xx%" format
      String fstr = option.asString( name ) ;
      fstr = fstr.substr(0,fstr.size()-1) ;
      fraction_ = String::toFloat( fstr ) * 0.01 ;
    }
    else {
      fraction_ = option.asFloat( name ) ;
    }
  }
  else {
    fraction_ = 0.1 ; // default is 10%
  }
  
  name = "width" ;
  if ( option.isDefined( name ) ) {
    width_ = option.asFloat( name ) ;
  }
  else {
    width_ = 0.5 ; // default is half of median separation
  }

  name = "elongated" ;
  if ( option.isDefined( name ) ) {
    elongated_ = option.asBool( name ) ;
  }
  else {
    elongated_ = False ; // default is two-dimensional processing
  }

  os_ << "OPTION SUMMARY: " << endl 
      << "   fraction=" << fraction_ << endl 
      << "   width=" << width_ << endl 
      << "   elongated=" << (elongated_ ? "True" : "False") << LogIO::POST ;
}

void GenericEdgeDetector::topixel() 
{
//   os_.origin(LogOrigin( "GenericEdgeDetector", "topixel", WHERE )) ;

  setup() ;
  // using DirectionCoordinate
  Matrix<Double> xform(2,2) ;
  xform = 0.0 ;
  xform.diagonal() = 1.0 ;
  DirectionCoordinate coord( MDirection::J2000,
                             Projection( Projection::SIN ),
                             cenx_, ceny_,
                             dx_, dy_,
                             xform,
                             0.5*Double(nx_-1), 
                             0.5*Double(ny_-1) ) ;
  Double *pdir_p = new Double[dir_.nelements()] ;
  pdir_.takeStorage( dir_.shape(), pdir_p, TAKE_OVER ) ;
  uInt len = time_.nelements() ;
  Bool b ;
  Double *dir_p = dir_.getStorage( b ) ;
  Double *wdir_p = dir_p ;
  Vector<Double> world ;
  Vector<Double> pixel ;
  IPosition vshape( 1, 2 ) ;
  for ( uInt i = 0 ; i < len ; i++ ) {
    world.takeStorage( vshape, wdir_p, SHARE ) ;
    pixel.takeStorage( vshape, pdir_p, SHARE ) ;
    coord.toPixel( pixel, world ) ;
    pdir_p += 2 ;
    wdir_p += 2 ;
  }
  dir_.putStorage( dir_p, b ) ;
}

void GenericEdgeDetector::setup() 
{
  os_.origin(LogOrigin( "GenericEdgeDetector", "setup", WHERE )) ;

  Double xmax, xmin, ymax, ymin ;
  minMax( xmin, xmax, dir_.row( 0 ) ) ;
  minMax( ymin, ymax, dir_.row( 1 ) ) ;
  Double wx = ( xmax - xmin ) * 1.1 ;
  Double wy = ( ymax - ymin ) * 1.1 ;

  cenx_ = 0.5 * ( xmin + xmax ) ;
  ceny_ = 0.5 * ( ymin + ymax ) ;
  Double decCorr = cos( ceny_ ) ;

  uInt len = time_.nelements() ;
  Matrix<Double> dd = dir_.copy() ;
  for ( uInt i = len-1 ; i > 0 ; i-- ) {
    //dd(0,i) = ( dd(0,i) - dd(0,i-1) ) * decCorr ;
    dd(0,i) = ( dd(0,i) - dd(0,i-1) ) * cos( 0.5*(dd(1,i-1)+dd(1,i)) ) ;
    dd(1,i) = dd(1,i) - dd(1,i-1) ;
  }
  Vector<Double> dr( len-1 ) ;
  Bool b ;
  const Double *dir_p = dd.getStorage( b ) ;
  const Double *x_p = dir_p + 2 ;
  const Double *y_p = dir_p + 3 ;
  for ( uInt i = 0 ; i < len-1 ; i++ ) {
    dr[i] = sqrt( (*x_p) * (*x_p) + (*y_p) * (*y_p) ) ;
    x_p += 2 ;
    y_p += 2 ;
  }
  dir_.freeStorage( dir_p, b ) ;
  Double med = median( dr, False, True, True ) ;
  dy_ = med * width_ ;
  dx_ = dy_ / decCorr ;

  Double nxTemp = ceil(wx / dx_);
  Double nyTemp = ceil(wy / dy_);
  if (nxTemp > (Double)UINT_MAX || nyTemp > (Double)UINT_MAX) {
          throw AipsError("Error in setup: Too large number of pixels.");
  }
  nx_ = uInt( nxTemp ) ;
  ny_ = uInt( nyTemp ) ;

  pcenx_ = 0.5 * Double( nx_ - 1 ) ;
  pceny_ = 0.5 * Double( ny_ - 1 ) ;

  os_ << LogIO::DEBUGGING 
      << "rangex=(" << xmin << "," << xmax << ")" << endl
      << "rangey=(" << ymin << "," << ymax << ")" << endl 
      << "median separation between pointings: " << med << endl 
      << "dx=" << dx_ << ", dy=" << dy_ << endl
      << "wx=" << wx << ", wy=" << wy << endl
      << "nx=" << nx_ << ", ny=" << ny_ << LogIO::POST ;
}

void GenericEdgeDetector::countup() 
{
  os_.origin(LogOrigin( "GenericEdgeDetector", "countup", WHERE )) ;

  try {
          size_t n = (size_t)nx_ * (size_t)ny_;
          uInt *a_p = new uInt[n] ;
          apix_.takeStorage( IPosition(2,nx_,ny_), a_p, TAKE_OVER ) ;
  }
  catch (std::bad_alloc const &e) {
          os_ << LogIO::SEVERE << "Failed to allocate working array" << LogIO::POST;
          throw e;
  }
  catch (...) {
          os_ << LogIO::SEVERE << "Failed due to unknown error" << LogIO::POST;
          throw;
  }
  apix_ = 0 ;
  
  uInt len = time_.nelements() ;
  uInt ix ;
  uInt iy ;
  // pdir_ is always contiguous
  const Double *pdir_p = pdir_.data() ;
  const Double *px_p = pdir_p ;
  const Double *py_p = pdir_p + 1 ;
  long offset ;
  // apix_ is always contiguous
  uInt *a_p = apix_.data();
  for ( uInt i = 0 ; i < len ; i++ ) {
    ix = uInt(round( *px_p )) ;
    iy = uInt(round( *py_p )) ;
    offset = ix + iy * nx_ ;
    *(a_p+offset) += 1 ;
    px_p += 2 ;
    py_p += 2 ;
  }

  os_ << LogIO::DEBUGGING 
      << "a.max()=" << max(apix_) << ",a.min()=" << min(apix_) << LogIO::POST ;
}

void GenericEdgeDetector::thresholding() 
{
  uInt len = apix_.nelements() ;
  uInt *a_p = apix_.data() ;
  for ( uInt i = 0 ; i < len ; i++ ) {
    *a_p = ((*a_p > 0) ? 1 : 0) ;
    a_p++ ;
  }
}

void GenericEdgeDetector::labeling() 
{
  os_.origin(LogOrigin( "GenericEdgeDetector", "labeling", WHERE )) ;

  uInt n = 1 ;
  uInt niter = 0 ;
  const uInt maxiter = 100 ;
  while ( n > 0 && niter < maxiter ) {
    n = _labeling() ;
    os_ << LogIO::DEBUGGING
        << "cycle " << niter << ": labeled " << n << " pixels" << LogIO::POST ;
    niter++ ;
  }
  if ( niter == maxiter ) {
    // WARN
    os_ << LogIO::WARN << "labeling not converged before maxiter=" << maxiter << LogIO::POST ;
  }
}

uInt GenericEdgeDetector::_labeling()
{
  uInt n = 0 ;
  for ( uInt ix = 0 ; ix < nx_ ; ix++ ) {
    Vector<uInt> v( apix_.row( ix ) ) ;
    uInt nx = __labeling( v ) ;
    n += nx ;
  }
  for ( uInt iy = 0 ; iy < ny_ ; iy++ ) {
    Vector<uInt> v( apix_.column( iy ) ) ;
    uInt ny = __labeling( v ) ;
    n += ny ;
  }
  return n ;
}

uInt GenericEdgeDetector::__labeling( Vector<uInt> &a ) 
{
  uInt n = 0 ;
  if ( allEQ( a, n ) ) {
    return n ;
  }

  uInt start ;
  uInt end ;
  _search( start, end, a ) ;
  for ( uInt i = start+1 ; i < end ; i++ ) {
    if ( a[i] == 0 ) {
      a[i] = 1 ;
      n++ ;
    }
  }
  return n ;
}

void GenericEdgeDetector::_search( uInt &start,
                                   uInt &end,
                                   const Vector<uInt> &a )
{
  uInt n = a.nelements() ;
  start = 0 ;
  while( a[start] == 0 ) {
    start++ ;
  }
  end = n - 1 ;
  while( a[end] == 0 ) {
    end-- ;
  }
}

void GenericEdgeDetector::trimming() 
{
  os_.origin(LogOrigin( "GenericEdgeDetector", "trimming", WHERE )) ;

  const uInt n1 = sum( apix_ ) ;
  const uInt nTrim = uInt(ceil( n1 * fraction_ )) ;
  os_ << LogIO::DEBUGGING
      << "number of nonzero pixel: " << n1 << endl
      << "number of pixels to be trimmed: " << nTrim << LogIO::POST ;
  uInt n = 0 ;
  uInt niter = 0 ;
  const uInt maxiter = 100 ;
  if ( !elongated_ ) {
    while ( n < nTrim && niter < maxiter ) {
      uInt m = _trimming() ;
      os_ << LogIO::DEBUGGING
          << "cycle " << niter << ": trimmed " << m << " pixels" << LogIO::POST ;
      n += m ;
      niter++ ;
    }
  }
  else if ( nx_ > ny_ ) {
    os_ << "1D triming along x-axis" << LogIO::POST ;
    while ( n < nTrim && niter < maxiter ) {
      uInt m = _trimming1DX() ;
      os_ << LogIO::DEBUGGING
          << "cycle " << niter << ": trimmed " << m << " pixels" << LogIO::POST ;
      n += m ;
      niter++ ;
    }
  }
  else { // nx_ < ny_
    os_ << "1D triming along y-axis" << LogIO::POST ;
    while ( n < nTrim && niter < maxiter ) {
      uInt m = _trimming1DY() ;
      os_ << LogIO::DEBUGGING
          << "cycle " << niter << ": trimmed " << m << " pixels" << LogIO::POST ;
      n += m ;
      niter++ ;
    }
  }
  os_ << LogIO::DEBUGGING
      << "number of pixels actually trimmed: " << n << LogIO::POST ;

  if ( niter == maxiter ) {
    // WARN
    os_ << LogIO::WARN << "trimming not converged before maxiter=" << maxiter << LogIO::POST ;
  }
}

uInt GenericEdgeDetector::_trimming() 
{
  uInt n = 0 ;
  Block<uInt> flatIdxList( apix_.nelements() ) ;
  uInt start ;
  uInt end ;
  uInt flatIdx ;
  for ( uInt ix = 0 ; ix < nx_ ; ix++ ) {
    Vector<uInt> v( apix_.row( ix ) ) ;
    if ( allEQ( v, (uInt)0 ) ) {
      continue ;
    }
    _search( start, end, v ) ;
    uInt offset = start * nx_ ;
    flatIdx = offset + ix ;
    flatIdxList[n++] = flatIdx ;
    if ( start != end ) {
      offset = end * nx_ ;
      flatIdx = offset + ix ;
      flatIdxList[n++] = flatIdx ;
    }
  }
  for ( uInt iy = 0 ; iy < ny_ ; iy++ ) {
    Vector<uInt> v( apix_.column( iy ) ) ;
    if ( allEQ( v, (uInt)0 ) ) {
      continue ;
    }
    uInt offset = iy * nx_ ;
    _search( start, end, v ) ;
    flatIdx = offset + start ;
    flatIdxList[n++] = flatIdx ;
    if ( start != end ) {
      flatIdx = offset + end ;
      flatIdxList[n++] = flatIdx ;
    }
  }
  n = genSort( flatIdxList.storage(), 
               n,
               Sort::Ascending,
               Sort::QuickSort | Sort::NoDuplicates ) ;
  Vector<uInt> v( IPosition(1,apix_.nelements()), apix_.data(), SHARE ) ; 
  const uInt *idx_p = flatIdxList.storage() ;
  for ( uInt i = 0 ; i < n ; i++ ) {
    v[*idx_p] = 0 ;
    idx_p++ ;
  }

  return n ;
}

uInt GenericEdgeDetector::_trimming1DX()
{
  uInt n = 0 ;
  const uInt nx = apix_.nrow() ;
  Vector<uInt> v1, v2 ;
  uInt ix, jx ;
  for ( ix = 0 ; ix < nx_ ; ix++ ) {
    v1.reference( apix_.row( ix ) ) ;
    if ( anyNE( v1, n ) ) break ;
  }
  for ( jx = nx-1 ; jx > ix ; jx-- ) {
    v2.reference( apix_.row( jx ) ) ;
    if ( anyNE( v2, n ) ) break ;
  }
  n += _trimming1D( v1 ) ;
  if ( ix != jx )
    n+= _trimming1D( v2 ) ;
  
  return n ;
}

uInt GenericEdgeDetector::_trimming1DY()
{
  uInt n = 0 ;
  const uInt ny = apix_.ncolumn() ;
  Vector<uInt> v1, v2 ;
  uInt iy, jy ;
  for ( iy = 0 ; iy < ny_ ; iy++ ) {
    v1.reference( apix_.column( iy ) ) ;
    if ( anyNE( v1, n ) ) break ;
  }
  for ( jy = ny-1 ; jy > iy ; jy-- ) {
    v2.reference( apix_.column( jy ) ) ;
    if ( anyNE( v2, n ) ) break ;
  }
  n += _trimming1D( v1 ) ;
  if ( iy != jy )
    n+= _trimming1D( v2 ) ;
  
  return n ;
}

uInt GenericEdgeDetector::_trimming1D( Vector<uInt> &a ) 
{
  uInt len = a.nelements() ;
  uInt n = 0 ;
  for ( uInt i = 0 ; i < len ; i++ ) {
    if ( a[i] == 1 ) {
      a[i] = 0 ;
      n++ ;
    }
  }
  
  return n ;
}

void GenericEdgeDetector::selection() 
{
//   os_.origin(LogOrigin( "GenericEdgeDetector", "selection", WHERE )) ;

  uInt nrow = pdir_.shape()[1] ;
  const Double *px_p = pdir_.data() ;
  const Double *py_p = px_p + 1 ;
  Vector<uInt> v( IPosition(1,apix_.nelements()), apix_.data(), SHARE ) ;
  uInt n = 0 ;
  for ( uInt irow = 0 ; irow < nrow ; irow++ ) {
    uInt idx = int(round(*px_p)) + int(round(*py_p)) * nx_ ;
    if ( v[idx] == 0 ) {
      tempuInt_[n++] = irow ;
    }
    px_p += 2 ;
    py_p += 2 ;
  }
  off_ = vectorFromTempStorage( n ) ;
}

void GenericEdgeDetector::tuning() 
{
  os_.origin(LogOrigin( "GenericEdgeDetector", "tuning", WHERE )) ;

  const uInt len = off_.nelements() ;
  if ( len == 0 ) 
    return ;

  Block<uInt> diff( len-1 ) ;
  for ( uInt i = 0 ; i < len-1 ; i++ ) {
    diff[i] = off_[i+1] - off_[i] ;
  }
  const uInt threshold = 3 ;
  uInt n = 0 ;
  for ( uInt i = 0 ; i < len ; i++ ) {
    tempuInt_[n++] = off_[i] ;
  }
  for ( uInt i = 1 ; i < len ; i++ ) {
    uInt ii = i - 1 ;
    if ( diff[ii] != 1 && diff[ii] < threshold ) {
      uInt t = off_[ii]+1 ;
      uInt u = off_[i] ;
      for ( uInt j = t ; j < u ; j++ ) {
        os_ << LogIO::DEBUGGING
            << "move " << j << " from ON to OFF" << LogIO::POST ;
        tempuInt_[n++] = j ;
      }
    }
  }
  if ( n > len ) {
    off_.resize() ;
    off_ = vectorFromTempStorage( n ) ;
  }
}

} // namespace asap