#include <itkImageFileReader.h>
#include <itkImageSeriesReader.h>
+#include <itkQuadEdgeMesh.h>
#include <vtkMarchingCubes.h>
+#include <vtkMarchingSquares.h>
+#include <vtkPolyDataConnectivityFilter.h>
+#include <vtkPolyDataMapper.h>
+#include <vtkProperty.h>
#include <vtkRenderer.h>
#include <vtkRenderWindow.h>
+#include <vtkSplineWidget.h>
#include <QtGui>
#include <ivq/ITK/CPRImageFilter.h>
+#include <ivq/VTK/ImageActor.h>
#include <ivq/VTK/ImageViewer.h>
#include <ivq/VTK/MPRViewers.h>
#include <ivq/VTK/PolyDataActor.h>
this->m_UI->a##x, SIGNAL( triggered( ) ), this, SLOT( _s##x( ) ) \
)
+// -------------------------------------------------------------------------
+class ContourCallback
+ : public vtkCommand
+{
+public:
+ static ContourCallback* New( )
+ {
+ return( new ContourCallback( ) );
+ }
+ virtual void Execute(
+ vtkObject* caller, unsigned long eId, void* data
+ ) override
+ {
+ ivq::VTK::ImageActor* actor =
+ ivq::VTK::ImageActor::SafeDownCast( caller );
+ if( eId == vtkCommand::InteractionEvent && actor != NULL )
+ {
+ ivq::VTK::ImageViewer* viewer = this->Window->m_UI->Slice->GetViewer( );
+ if( this->Window->m_ContourActor != NULL )
+ viewer->GetRenderer( )->RemoveViewProp( this->Window->m_ContourActor->GetActor( ) );
+
+ double abnds[ 6 ];
+ actor->GetActorBounds( abnds );
+ unsigned int nSlice = actor->GetSliceNumber( );
+ for( unsigned int i = 0; i < 16; ++i )
+ {
+ double w = double( 6.28 ) * double( i ) / double( 16 );
+ CTArteries::TFourier::TPoint v = this->Window->m_Fourier[ nSlice ]( w );
+ this->Window->m_Spline->SetHandlePosition(
+ i, v[ 0 ], v[ 1 ], abnds[ 4 ]
+ );
+
+ } // rof
+ this->Window->m_Spline->SetProjectionPosition(
+ (
+ actor->GetBounds( )[ 4 ] +
+ actor->GetBounds( )[ 5 ]
+ ) / double( 2 )
+ );
+
+
+ this->Window->m_ContourActor =
+ this->Window->m_ContoursActors[ actor->GetSliceNumber( ) ];
+ viewer->GetRenderer( )->AddViewProp( this->Window->m_ContourActor->GetActor( ) );
+ viewer->Render( );
+
+ } // fi
+ }
+
+protected:
+ ContourCallback( )
+ : vtkCommand( )
+ {
+ }
+ virtual ~ContourCallback( )
+ {
+ }
+
+private:
+ // Purposely not implemented
+ ContourCallback( const ContourCallback& other );
+ ContourCallback& operator=( const ContourCallback& other );
+public:
+ CTArteries* Window;
+};
+
// -------------------------------------------------------------------------
CTArteries::
CTArteries( int argc, char* argv[], QWidget* parent )
this->m_Axis->DisconnectPipeline( );
}
+// -------------------------------------------------------------------------
+void CTArteries::
+_prepareQuantification( )
+{
+ this->m_Contours.clear( );
+ this->m_ContoursActors.clear( );
+ this->m_Fourier.clear( );
+
+ TImage::RegionType ext_region = this->m_CPRImage->GetRequestedRegion( );
+ for( long z = 0; z < ext_region.GetSize( )[ 2 ]; ++z )
+ {
+ TImage::IndexType slc_idx = ext_region.GetIndex( );
+ TImage::SizeType slc_size = ext_region.GetSize( );
+ slc_idx[ 2 ] += z;
+ slc_size[ 2 ] = 1;
+ TImage::RegionType slc_region;
+ slc_region.SetIndex( slc_idx );
+ slc_region.SetSize( slc_size );
+
+ typedef itk::RegionOfInterestImageFilter< TScalarImage, TScalarImage > _TROI;
+ _TROI::Pointer roi = _TROI::New( );
+ roi->SetInput( this->m_CPRSegmentation );
+ roi->SetRegionOfInterest( slc_region );
+
+ /* TODO
+ slc_idx[ 2 ] = 1;
+ slc_size[ 2 ] = 0;
+ slc_region.SetIndex( slc_idx );
+ slc_region.SetSize( slc_size );
+ typedef itk::Image< TBinPixel, 2 > _TBinSlice;
+ typedef itk::ExtractImageFilter< TBinImage, _TBinSlice > _TCollapse;
+ _TCollapse::Pointer collapse = _TCollapse::New( );
+ collapse->SetInput( roi->GetOutput( ) );
+ collapse->SetDirectionCollapseToIdentity( );
+ collapse->SetExtractionRegion( slc_region );
+ collapse->UpdateLargestPossibleRegion( );
+ */
+ typedef TScalarImage _TScalarSlice;
+
+ typedef itk::ImageToVTKImageFilter< _TScalarSlice > _TVTKScalarSlice;
+ _TVTKScalarSlice::Pointer vtk_slice = _TVTKScalarSlice::New( );
+ vtk_slice->SetInput( roi->GetOutput( ) );
+ vtk_slice->Update( );
+
+ double r[ 2 ];
+ vtk_slice->GetOutput( )->GetScalarRange( r );
+
+ vtkSmartPointer< vtkMarchingSquares > ms =
+ vtkSmartPointer< vtkMarchingSquares >::New( );
+ ms->SetInputData( vtk_slice->GetOutput( ) );
+ ms->SetValue( 0, 0 );
+
+ vtkSmartPointer< vtkPolyDataConnectivityFilter > conn =
+ vtkSmartPointer< vtkPolyDataConnectivityFilter >::New( );
+ conn->SetInputConnection( ms->GetOutputPort( ) );
+ conn->SetExtractionModeToClosestPointRegion( );
+ conn->SetClosestPoint( 0, 0, 0 );
+ conn->Update( );
+
+ vtkSmartPointer< vtkPolyData > cnt = vtkSmartPointer< vtkPolyData >::New( );
+ cnt->DeepCopy( conn->GetOutput( ) );
+ this->m_Contours.push_back( cnt );
+
+ typedef itk::QuadEdgeMesh< double, 2 > _TQEMesh;
+ typedef _TQEMesh::PointType _T2DPoint;
+ typedef std::vector< _T2DPoint > _T2DPoints;
+ _T2DPoints points;
+ _TQEMesh::Pointer mesh = _TQEMesh::New( );
+ for( unsigned int i = 0; i < cnt->GetNumberOfPoints( ); ++i )
+ {
+ _T2DPoint pnt;
+ double p[ 3 ];
+ cnt->GetPoint( i, p );
+ pnt[ 0 ] = p[ 0 ];
+ pnt[ 1 ] = p[ 1 ];
+ mesh->AddPoint( pnt );
+
+ } // rof
+ vtkCellArray* lines = cnt->GetLines( );
+ lines->InitTraversal( );
+ vtkIdType* ids = new vtkIdType[ 2 ];
+ vtkIdType npts;
+ while( lines->GetNextCell( npts, ids ) != 0 )
+ mesh->AddEdge( ids[ 0 ], ids[ 1 ] );
+ delete ids;
+ mesh->AddFace( mesh->GetEdge( ) );
+ _TQEMesh::QEPrimal* edge = mesh->GetEdge( );
+ for( auto eIt = edge->BeginGeomLnext( ); eIt != edge->EndGeomLnext( ); ++eIt )
+ points.push_back( mesh->GetPoint( *eIt ) );
+
+ TFourier f( points.begin( ), points.end( ), 3 );
+ f.SetOrderingToCounterClockWise( );
+ this->m_Fourier.push_back( f );
+
+ vtkSmartPointer< ivq::VTK::PolyDataActor > actor =
+ vtkSmartPointer< ivq::VTK::PolyDataActor >::New( );
+ actor->SetInputData( cnt );
+ actor->GetMapper( )->ScalarVisibilityOff( );
+ actor->Update( );
+ actor->GetProperty( )->SetColor( 1, 0, 0 );
+ actor->GetProperty( )->SetLineWidth( 2 );
+ this->m_ContoursActors.push_back( actor );
+
+ } // rof
+
+ ivq::VTK::ImageViewer* slice_view = this->m_UI->Slice->GetViewer( );
+ vtkSmartPointer< ContourCallback > cbk =
+ vtkSmartPointer< ContourCallback >::New( );
+ cbk->Window = this;
+ slice_view->GetImageActor( )->AddObserver( vtkCommand::InteractionEvent, cbk );
+ this->m_ContourActor = NULL;
+
+ this->m_Spline = vtkSmartPointer< vtkSplineWidget >::New( );
+ this->m_Spline->SetCurrentRenderer( slice_view->GetRenderer( ) );
+ this->m_Spline->SetDefaultRenderer( slice_view->GetRenderer( ) );
+ this->m_Spline->SetInputData( slice_view->GetInput( ) );
+ this->m_Spline->SetProp3D( slice_view->GetImageActor( ) );
+ this->m_Spline->SetInteractor( slice_view->GetRenderWindow( )->GetInteractor( ) );
+ double bnds[ 6 ];
+ slice_view->GetInput( )->GetBounds( bnds );
+ this->m_Spline->PlaceWidget(
+ bnds[ 0 ], bnds[ 1 ],
+ bnds[ 2 ], bnds[ 3 ],
+ bnds[ 4 ], bnds[ 5 ]
+ );
+ this->m_Spline->ProjectToPlaneOn( );
+ this->m_Spline->SetProjectionNormalToZAxes( );
+ this->m_Spline->SetProjectionPosition(
+ (
+ slice_view->GetImageActor( )->GetBounds( )[ 4 ] +
+ slice_view->GetImageActor( )->GetBounds( )[ 5 ]
+ ) / double( 2 )
+ );
+ this->m_Spline->SetHandleSize( 0.005 );
+ this->m_Spline->ClosedOn( );
+ this->m_Spline->SetNumberOfHandles( 16 );
+ this->m_Spline->EnabledOn( );
+
+ QVector< double > xdata, dmindata, dmaxdata, areadata;
+ double data[ 3 ];
+ for( unsigned int i = 0; i < this->m_Fourier.size( ); ++i )
+ {
+ double a, b, t, p;
+ this->m_Fourier[ i ].GetEllipse( 1, a, b, t, p );
+ double area = this->m_Fourier[ i ].GetArea( );
+
+ xdata.push_back( double( i ) );
+ dmindata.push_back( b );
+ dmaxdata.push_back( a );
+ areadata.push_back( area );
+
+ } // rof
+ this->m_UI->Plot->addGraph( this->m_UI->Plot->xAxis, this->m_UI->Plot->yAxis );
+ this->m_UI->Plot->graph( 0 )->setPen( QPen( QColor( 255, 0, 0 ) ) );
+ this->m_UI->Plot->graph( 0 )->setName( "Minimum diameter (mm)" );
+ this->m_UI->Plot->graph( 0 )->setData( xdata, dmindata );
+
+ this->m_UI->Plot->addGraph( this->m_UI->Plot->xAxis, this->m_UI->Plot->yAxis );
+ this->m_UI->Plot->graph( 1 )->setPen( QPen( QColor( 0, 255, 0 ) ) );
+ this->m_UI->Plot->graph( 1 )->setName( "Maximum diameter (mm)" );
+ this->m_UI->Plot->graph( 1 )->setData( xdata, dmaxdata );
+
+ this->m_UI->Plot->addGraph( this->m_UI->Plot->xAxis, this->m_UI->Plot->yAxis2 );
+ this->m_UI->Plot->graph( 2 )->setPen( QPen( QColor( 0, 0, 255 ) ) );
+ this->m_UI->Plot->graph( 2 )->setName( "Area (mm2)" );
+ this->m_UI->Plot->graph( 2 )->setData( xdata, areadata );
+
+ this->m_UI->Plot->xAxis->setLabel( "Position" );
+ this->m_UI->Plot->yAxis->setLabel( "Diameters (mm)" );
+ this->m_UI->Plot->yAxis2->setLabel( "Areas (mm2)" );
+
+ this->m_UI->Plot->legend->setVisible( true );
+ this->m_UI->Plot->xAxis->setVisible( true );
+ this->m_UI->Plot->yAxis->setVisible( true );
+ this->m_UI->Plot->yAxis2->setVisible( true );
+
+ this->m_UI->Plot->rescaleAxes( );
+ this->m_UI->Plot->replot( );
+}
+
// -------------------------------------------------------------------------
void CTArteries::
_showProcessResults( )
this->m_Curve->AddPoint( this->m_Axis->GetPoint( i ) );
this->m_Curve->Smooth( 2 );
+ // Compute CPRs
+ this->_CPR(
+ this->m_CPRImage, this->m_VTKCPRImage,
+ this->m_Image, this->m_Curve
+ );
+ this->_CPR(
+ this->m_CPRSegmentation, this->m_VTKCPRSegmentation,
+ this->m_Segmentation, this->m_Curve
+ );
+
// Show all data
vtkRenderer* renderer =
this->m_UI->MPR->GetRendererWidget( )->GetRenderer( );
renderer->Render( );
renderer->ResetCamera( );
this->m_UI->MPR->GetRendererWidget( )->GetRenderWindow( )->Render( );
+
+ ivq::VTK::ImageViewer* cpr_view = this->m_UI->CPR->GetViewer( );
+ ivq::VTK::ImageViewer* slice_view = this->m_UI->Slice->GetViewer( );
+
+ cpr_view->SetInputData( this->m_VTKCPRImage->GetOutput( ) );
+ cpr_view->SetColorWindow( 1000 );
+ cpr_view->SetColorLevel( 100 );
+ cpr_view->SetSliceOrientationToXZ( );
+ cpr_view->Render( );
+
+ slice_view->SetInputData( this->m_VTKCPRImage->GetOutput( ) );
+ slice_view->SetColorWindow( 1000 );
+ slice_view->SetColorLevel( 100 );
+ slice_view->SetSliceOrientationToXY( );
+ slice_view->Render( );
+
+ this->_prepareQuantification( );
}
// -------------------------------------------------------------------------
this->_showProcessResults( );
}
+// -------------------------------------------------------------------------
+template< class _TImagePtr, class _TVTKImagePtr, class _TCurvePtr >
+void CTArteries::
+_CPR(
+ _TImagePtr& output, _TVTKImagePtr& vtk_output,
+ const _TImagePtr& input, const _TCurvePtr& curve
+ )
+{
+ typedef typename _TImagePtr::ObjectType _TImage;
+ typedef typename _TCurvePtr::ObjectType _TCurve;
+ typedef ivq::ITK::CPRImageFilter< _TImage, _TCurve > _TFilter;
+
+ typename _TFilter::Pointer cpr = _TFilter::New( );
+ cpr->SetInput( input );
+ cpr->SetCurve( curve );
+ cpr->SetSliceRadius( 40 );
+ cpr->Update( );
+ output = cpr->GetOutput( );
+ output->DisconnectPipeline( );
+
+ vtk_output = _TVTKImagePtr::ObjectType::New( );
+ vtk_output->SetInput( output );
+ vtk_output->Update( );
+}
+
// -------------------------------------------------------------------------
#include <QApplication>
git://git.creatis.insa-lyon.fr / FrontAlgorithms.git / blobdiff