#ifndef __fpa__Image__SkeletonFilter__hxx__
#define __fpa__Image__SkeletonFilter__hxx__
+#include <itkImageRegionIteratorWithIndex.h>
#include <itkMinimumMaximumImageCalculator.h>
// -------------------------------------------------------------------------
void fpa::Image::SkeletonFilter< _TImage, _TScalar >::
_SetOutputValue( const TVertex& vertex, const TOutputValue& value )
{
- /* TODO
- typedef typename _TSkeletonQueue::value_type _TSkeletonQueueValue;
-
- this->Superclass::_UpdateResult( n );
- double d = double( this->GetInput( )->GetPixel( n.Vertex ) );
- if( d >= double( 0 ) )
- {
- // Update skeleton candidates
- d += double( 1e-5 );
- double v = double( n.Result ) / ( d * d );
- this->m_SkeletonQueue.insert( _TSkeletonQueueValue( v, n.Vertex ) );
-
- } // fi
- */
+ typedef typename _TSkeletonQueue::value_type _TSkeletonQueueValue;
+
+ this->Superclass::_SetOutputValue( vertex, value );
+ double d = double( this->m_DistanceMap->GetOutput( )->GetPixel( vertex ) );
+ if( d >= double( 0 ) )
+ {
+ // Update skeleton candidates
+ d += double( 1e-5 );
+ double v = double( value ) / ( d * d );
+ this->m_SkeletonQueue.insert( _TSkeletonQueueValue( v, vertex ) );
+
+ } // fi
}
// -------------------------------------------------------------------------
void fpa::Image::SkeletonFilter< _TImage, _TScalar >::
_EndPoints( std::vector< TVertex >& end_points, _TAdjacencies& A )
{
- /* TODO
- auto marks = this->GetMarks( );
- auto mst = this->GetMinimumSpanningTree( );
- auto spac = marks->GetSpacing( );
-
- // Some values
- marks->SetLargestPossibleRegion( mst->GetLargestPossibleRegion( ) );
- marks->SetRequestedRegion( mst->GetRequestedRegion( ) );
- marks->SetBufferedRegion( mst->GetBufferedRegion( ) );
- marks->SetSpacing( mst->GetSpacing( ) );
- marks->SetOrigin( mst->GetOrigin( ) );
- marks->SetDirection( mst->GetDirection( ) );
- marks->Allocate( );
- marks->FillBuffer( 0 );
-
- // BFS from maximum queue
- while( this->m_SkeletonQueue.size( ) > 0 )
- {
- // Get node
- auto nIt = this->m_SkeletonQueue.begin( );
- auto n = *nIt;
- this->m_SkeletonQueue.erase( nIt );
-
- // Mark it and update end-points
- unsigned char m = marks->GetPixel( n.second );
- if( m != 0 )
- continue;
- marks->SetPixel( n.second, 1 );
- end_points.push_back( n.second );
-
- // Mark path
- TVertex it = n.second;
- TVertex p = mst->GetParent( it );
- while( it != p )
- {
- this->_MarkSphere( it );
- it = p;
- p = mst->GetParent( it );
-
- } // elihw
- this->_MarkSphere( it );
- A[ n.second ] = it;
-
- } // elihw
- */
+ typedef typename _TSkeletonQueue::value_type _TSkeletonQueueValue;
+
+ TMarks* marks = this->GetMarks( );
+ TMST* mst = this->GetMinimumSpanningTree( );
+ typename TImage::SpacingType spac = marks->GetSpacing( );
+
+ // Some values
+ marks->SetLargestPossibleRegion( mst->GetLargestPossibleRegion( ) );
+ marks->SetRequestedRegion( mst->GetRequestedRegion( ) );
+ marks->SetBufferedRegion( mst->GetBufferedRegion( ) );
+ marks->SetSpacing( mst->GetSpacing( ) );
+ marks->SetOrigin( mst->GetOrigin( ) );
+ marks->SetDirection( mst->GetDirection( ) );
+ marks->Allocate( );
+ marks->FillBuffer( 0 );
+
+ // BFS from maximum queue
+ while( this->m_SkeletonQueue.size( ) > 0 )
+ {
+ // Get node
+ typename _TSkeletonQueue::iterator nIt = this->m_SkeletonQueue.begin( );
+ _TSkeletonQueueValue n = *nIt;
+ this->m_SkeletonQueue.erase( nIt );
+
+ // Mark it and update end-points
+ unsigned char m = marks->GetPixel( n.second );
+ if( m != 0 )
+ continue;
+ marks->SetPixel( n.second, 1 );
+ end_points.push_back( n.second );
+
+ // Mark path
+ TVertex it = n.second;
+ TVertex p = mst->GetParent( it );
+ while( it != p )
+ {
+ this->_MarkSphere( it );
+ it = p;
+ p = mst->GetParent( it );
+
+ } // elihw
+ this->_MarkSphere( it );
+ A[ n.second ] = it;
+
+ } // elihw
}
// -------------------------------------------------------------------------
void fpa::Image::SkeletonFilter< _TImage, _TScalar >::
_Skeleton( const std::vector< TVertex >& end_points, _TAdjacencies& A )
{
- /* TODO
- typedef itk::Image< unsigned long, Self::Dimension > _TTagsImage;
- typedef typename TMST::TPath _TPath;
-
- auto mst = this->GetMinimumSpanningTree( );
- auto skeleton = this->GetSkeleton( );
-
- // Tag branches
- typename _TTagsImage::Pointer tags = _TTagsImage::New( );
- tags->SetLargestPossibleRegion( mst->GetLargestPossibleRegion( ) );
- tags->SetRequestedRegion( mst->GetRequestedRegion( ) );
- tags->SetBufferedRegion( mst->GetBufferedRegion( ) );
- tags->Allocate( );
- tags->FillBuffer( 0 );
- for( auto eIt = end_points.begin( ); eIt != end_points.end( ); ++eIt )
- {
- TVertex it = *eIt;
- TVertex p = mst->GetParent( it );
- while( it != p )
- {
- tags->SetPixel( it, tags->GetPixel( it ) + 1 );
- it = p;
- p = mst->GetParent( it );
-
- } // elihw
- tags->SetPixel( it, tags->GetPixel( it ) + 1 );
-
- } // rof
-
- // Build paths (branches)
- for( auto eIt = end_points.begin( ); eIt != end_points.end( ); ++eIt )
- {
- TVertex it = *eIt;
- TVertex p = mst->GetParent( it );
- TVertex sIdx = *eIt;
- typename _TPath::Pointer path = _TPath::New( );
- path->SetReferenceImage( mst );
- while( it != p )
- {
- if( tags->GetPixel( sIdx ) != tags->GetPixel( it ) )
- {
- // Ok, a new branch has been added
- path->AddVertex( it );
- skeleton->AddBranch( path );
-
- // Update a new starting index
- path = _TPath::New( );
- path->SetReferenceImage( mst );
- sIdx = it;
- }
- else
- path->AddVertex( it );
- it = p;
- p = mst->GetParent( it );
-
- } // elihw
-
- // Finally, add last branch
- path->AddVertex( it );
- skeleton->AddBranch( path );
-
- } // rof
- */
+ typedef typename TSkeleton::TPath _TPath;
+ typedef itk::Image< unsigned long, TImage::ImageDimension > _TTagsImage;
+
+ TMST* mst = this->GetMinimumSpanningTree( );
+ TSkeleton* skeleton = this->GetSkeleton( );
+
+ // Tag branches
+ typename _TTagsImage::Pointer tags = _TTagsImage::New( );
+ tags->SetLargestPossibleRegion( mst->GetLargestPossibleRegion( ) );
+ tags->SetRequestedRegion( mst->GetRequestedRegion( ) );
+ tags->SetBufferedRegion( mst->GetBufferedRegion( ) );
+ tags->Allocate( );
+ tags->FillBuffer( 0 );
+ for( TVertex it: end_points )
+ {
+ TVertex p = mst->GetParent( it );
+ while( it != p )
+ {
+ tags->SetPixel( it, tags->GetPixel( it ) + 1 );
+ it = p;
+ p = mst->GetParent( it );
+
+ } // elihw
+ tags->SetPixel( it, tags->GetPixel( it ) + 1 );
+
+ } // rof
+
+ // Build paths (branches)
+ for( TVertex it: end_points )
+ {
+ TVertex p = mst->GetParent( it );
+ TVertex sIdx = it;
+ typename _TPath::Pointer path = _TPath::New( );
+ path->SetReferenceImage( mst );
+ while( it != p )
+ {
+ if( tags->GetPixel( sIdx ) != tags->GetPixel( it ) )
+ {
+ // Ok, a new branch has been added
+ path->AddVertex( it );
+ skeleton->AddBranch( path );
+
+ // Update a new starting index
+ path = _TPath::New( );
+ path->SetReferenceImage( mst );
+ sIdx = it;
+ }
+ else
+ path->AddVertex( it );
+ it = p;
+ p = mst->GetParent( it );
+
+ } // elihw
+
+ // Finally, add last branch
+ path->AddVertex( it );
+ skeleton->AddBranch( path );
+
+ } // rof
}
// -------------------------------------------------------------------------
void fpa::Image::SkeletonFilter< _TImage, _TScalar >::
_MarkSphere( const TVertex& idx )
{
- /* TODO
- typedef itk::ImageRegionIteratorWithIndex< TMarks > _TMarksIt;
-
- static const double _eps = std::sqrt( double( Self::Dimension + 1 ) );
- auto input = this->GetInput( );
- auto marks = this->GetMarks( );
- auto spac = input->GetSpacing( );
- auto region = input->GetRequestedRegion( );
-
- typename _TImage::PointType cnt;
- input->TransformIndexToPhysicalPoint( idx, cnt );
- double r = double( input->GetPixel( idx ) ) * _eps;
-
- TVertex i0, i1;
- for( unsigned int d = 0; d < Self::Dimension; ++d )
- {
- long off = long( std::ceil( r / double( spac[ d ] ) ) );
- if( off < 3 )
- off = 3;
- i0[ d ] = idx[ d ] - off;
- i1[ d ] = idx[ d ] + off;
-
- if( i0[ d ] < region.GetIndex( )[ d ] )
- i0[ d ] = region.GetIndex( )[ d ];
-
- if( i1[ d ] >= region.GetIndex( )[ d ] + region.GetSize( )[ d ] )
- i1[ d ] = region.GetIndex( )[ d ] + region.GetSize( )[ d ] - 1;
-
- } // rof
-
- typename _TImage::SizeType size;
- for( unsigned int d = 0; d < Self::Dimension; ++d )
- size[ d ] = i1[ d ] - i0[ d ] + 1;
-
- typename _TImage::RegionType neighRegion;
- neighRegion.SetIndex( i0 );
- neighRegion.SetSize( size );
-
- _TMarksIt mIt( marks, neighRegion );
- for( mIt.GoToBegin( ); !mIt.IsAtEnd( ); ++mIt )
- {
- TVertex w = mIt.GetIndex( );
- typename _TImage::PointType p;
- marks->TransformIndexToPhysicalPoint( w, p );
- mIt.Set( 1 );
-
- } // rof
- */
+ typedef itk::ImageRegionIteratorWithIndex< TMarks > _TMarksIt;
+
+ static const double _eps = std::sqrt( double( TImage::ImageDimension + 1 ) );
+ const TScalarImage* dmap = this->m_DistanceMap->GetOutput( );
+ TMarks* marks = this->GetMarks( );
+ typename TImage::SpacingType spac = dmap->GetSpacing( );
+ typename TImage::RegionType region = dmap->GetRequestedRegion( );
+
+ typename TImage::PointType cnt;
+ dmap->TransformIndexToPhysicalPoint( idx, cnt );
+ double r = double( dmap->GetPixel( idx ) ) * _eps;
+
+ TVertex i0, i1;
+ for( unsigned int d = 0; d < TImage::ImageDimension; ++d )
+ {
+ long off = long( std::ceil( r / double( spac[ d ] ) ) );
+ if( off < 3 )
+ off = 3;
+ i0[ d ] = idx[ d ] - off;
+ i1[ d ] = idx[ d ] + off;
+
+ if( i0[ d ] < region.GetIndex( )[ d ] )
+ i0[ d ] = region.GetIndex( )[ d ];
+
+ if( i1[ d ] >= region.GetIndex( )[ d ] + region.GetSize( )[ d ] )
+ i1[ d ] = region.GetIndex( )[ d ] + region.GetSize( )[ d ] - 1;
+
+ } // rof
+
+ typename TImage::SizeType size;
+ for( unsigned int d = 0; d < TImage::ImageDimension; ++d )
+ size[ d ] = i1[ d ] - i0[ d ] + 1;
+
+ typename TImage::RegionType neighRegion;
+ neighRegion.SetIndex( i0 );
+ neighRegion.SetSize( size );
+
+ _TMarksIt mIt( marks, neighRegion );
+ for( mIt.GoToBegin( ); !mIt.IsAtEnd( ); ++mIt )
+ {
+ TVertex w = mIt.GetIndex( );
+ typename TImage::PointType p;
+ marks->TransformIndexToPhysicalPoint( w, p );
+ mIt.Set( 1 );
+
+ } // rof
}
#endif // __fpa__Image__SkeletonFilter__hxx__
git://git.creatis.insa-lyon.fr / FrontAlgorithms.git / blobdiff