marDynData Class Reference

#include <marDynData.h>

Inheritance diagram for marDynData:

[legend]

Collaboration diagram for marDynData:

[legend]

List of all members.

Public Member Functions
	marDynData (marParameters *p=NULL)
	~marDynData ()
void	loadData (kVolume *vol, int *voi)
float	getActualVoxel ()
kVolume *	getVolume ()
void	reset ()
void	copyFrom (const marObject &from)
bool	save (std::ofstream &os)
bool	load (std::ifstream &is)
marImageData *	GetMarImageData ()
void	setParameters (marParameters *p)
void	copyParameters (marParameters *p)
void	makeACopyParameters ()
marParameters *	getParameters ()
bool	parametersOwned ()
virtual void	copyFrom (const marObject &from)=0
bool	save (std::string &nw)
bool	load (std::string &nr)
Private Attributes
marImageData *	_marimagedata
kVolume *	_volume

---

Detailed Description

Definition at line 27 of file marDynData.h.

---

Constructor & Destructor Documentation

marDynData::marDynData

(

marParameters *

p = NULL

)

Definition at line 27 of file marDynData.cpp.

References _marimagedata.

                                         : marObject( p ), _volume( NULL )
{
        _marimagedata = new marImageData(NULL); 
}

marDynData::~marDynData

(

)

Definition at line 33 of file marDynData.cpp.

References _marimagedata, and reset().

{
//      _marimagedata->SetImageData(NULL);
        delete _marimagedata;
        reset( );
}

Here is the call graph for this function:

---

Member Function Documentation

virtual void marObject::copyFrom

(

const marObject &

from

)

[pure virtual, inherited]

void marDynData::copyFrom

(

const marObject &

from

)

Definition at line 140 of file marDynData.cpp.

References _volume, and reset().

{
  reset( );
  _volume = new kVolume( *( ( ( marDynData& )from )._volume ) );
}

Here is the call graph for this function:

void marObject::copyParameters

(

marParameters *

p

)

[inherited]

Definition at line 42 of file marObject.cpp.

References marObject::_parameters, and marObject::_parametersCopied.

{
    if( _parametersCopied && _parameters != NULL ) delete _parameters;
    _parameters = new marParameters( );
    *_parameters = *p;
    _parametersCopied = true;
}

float marDynData::getActualVoxel

(

)

[inline]

Definition at line 39 of file marDynData.h.

References marObject::getParameters(), and marParameters::getVoxelSize().

{ return getParameters()->getVoxelSize( ); }

Here is the call graph for this function:

marImageData * marDynData::GetMarImageData

(

)

Definition at line 198 of file marDynData.cpp.

References _marimagedata.

Referenced by wxSTLWidget_03::ConfigureVTK(), and wxQuantificationWidgetCT::MoveSlider().

{
        return _marimagedata;
}

Here is the caller graph for this function:

marParameters* marObject::getParameters

(

)

[inline, inherited]

Parameters analizers.

Definition at line 55 of file marObject.h.

Referenced by marAxisCT::adjustWall(), marAxis::calculateSignal(), marAxis::create2Dcontour(), marAxis::create2DDiameterMax(), marAxis::create2DDiameterMin(), marAxisCT::create2DDiametersMax(), marAxisCT::create2DDiametersMin(), marAxis::create3DSlice(), marAxis::createContour(), marAxisCT::createContours(), marAxis::createSlice(), marAxis::doSpline(), marAxisCT::extractLumen(), marExperiment::extractVascularTree(), marAxisCT::generatePoints(), getActualVoxel(), marAxisCT::histogram(), marExperiment::initExperiment(), marExperiment::load(), marAxis::load(), marRAW2Files::loadActualSerie(), marRAW2AsciiFiles::loadActualSerie(), marRAWFiles::loadActualSerie(), loadData(), marSimpleDicom::loadVolumeDXMM(), wxEmptyPanelWidget_2::OnBtnExtractTree_MH_JFC(), wxSurfaceWidget::OnManualAxis(), vtk3DQuantSurfaceWidget::Set3DSliceActor(), vtk3DSurfaceWidget::SetInitialPoint(), marAxisCT::setStartIndex(), marExperimentCT::updateCalcPercentage(), marAxisCT::updateCalcPercentage(), marExperimentCT::updateDiscontinuityThreshold(), marExperimentCT::updateLumenPercentage(), and marAxisCT::updateLumenPercentage().

{ return( _parameters ); };

Here is the caller graph for this function:

kVolume* marDynData::getVolume

(

)

[inline]

Definition at line 40 of file marDynData.h.

Referenced by marExperiment::calculateAxesSignal(), wxSTLWidget_02::ConfigureVTK(), wxPathologyWidget_01::ConfigureVTK(), wxEmptyPanelWidget_2::ConfigureVTK(), wxSTLWidget_02::CreateViewPanel(), wxSTLWidget_03::CreateViewPanel(), TreeExtraction_MH_JFC::Execute(), wxEmptyPanelWidget_2::ExtractTree1_JF(), wxSTLWidget_02::ExtractTree2_JF(), wxEmptyPanelWidget_2::ExtractTree2_JF(), marExperiment::extractVascularTree(), marExperimentCT::generateFile(), GetActualAxis_dll(), GetImageRange_dll(), marInterfaceCT::getMinMax(), GetVTKVolume_dll(), marExperimentCT::histogram(), TreeExtraction_MH_JFC::InitImagaDataResult(), marExperimentCT::markUpLumen(), wxPathologyWidget_01::OnBtnExtractPat(), wxEmptyPanelWidget_2::OnBtnExtractTree_MH_JFC(), wxSurfaceWidget::OnExtractAxis(), wxSurfaceWidget::OnManualAxis(), marExperimentCT::performAND(), marExperimentCT::performUnion(), marExperimentCT::performXOR(), marExperiment::prepareContourImages(), marExperiment::RegenerateSignal(), wxSurfaceWidget::ShowMARACASData(), wxSurfaceSTLWidget::ShowMARACASData(), wxQuantificationWidget::ShowMARACASData(), vtk3DSurfaceWidget::ShowMARACASData(), vtk3DSurfaceSTLWidget::ShowMARACASData(), vtk3DSurfaceWidget::ShowMARACASDataCT(), marExperimentCT::updateCalcPercentage(), and marExperimentCT::updateLumenPercentage().

{ return( _volume );    };

Here is the caller graph for this function:

bool marObject::load

(

std::string &

nr

)

[inherited]

Definition at line 67 of file marObject.cpp.

References marObject::load().

Referenced by marObject::load().

{
    std::ifstream is( nr.c_str( ) );

    if( is ) {

        load( is );
        is.close( );
        return( true );

    } // fi

    return( false );
}

Here is the call graph for this function:

Here is the caller graph for this function:

bool marDynData::load

(

std::ifstream &

is

)

[virtual]

Implements marObject.

Definition at line 172 of file marDynData.cpp.

References _volume, and reset().

Referenced by marExperiment::load().

{
    uchar* data;
    uint dims[ 3 ];
    ulong dSize;
    double sizes[ 3 ];
    kVolume::Type type;

    reset( );

    is.read( ( char* )dims, 3 * sizeof( uint ) );
    is.read( ( char* )sizes, 3 * sizeof( double ) );
    is.read( ( char* )&type, sizeof( kVolume::Type ) );
    is.read( ( char* )&dSize, sizeof( ulong ) );
    data = new uchar[ dSize ];
    is.read( ( char* )data, dSize );
        
    _volume = new kVolume( type, dims, sizes, ( void* )data );
        
    //cleaning
    delete[] data;

    return( true );
}

Here is the call graph for this function:

Here is the caller graph for this function:

void marDynData::loadData	(	kVolume *	vol,
		int *	voi
	)

Before we were using kgfoCrop which assume extent start at 0,0,0

Definition at line 41 of file marDynData.cpp.

References _marimagedata, _volume, marImageData::AddImageData(), marObject::getParameters(), marParameters::getRescaleIntercept(), marParameters::getRescaleSlope(), marParameters::getVoxelSize(), reset(), marImageData::SetSpcOriginal(), and marImageData::SetVoiOriginal().

Referenced by marExperiment::initExperiment().

 {
   int ext[6];
   reset( );
 
   vtkExtractVOI *crop = vtkExtractVOI::New();
   crop->SetInput( vol->castVtk( ) );

   crop->SetVOI( voi );
   //crop->SetSampleRate( getParameters( )->getVoxelSize( ), getParameters( )->getVoxelSize( ), getParameters( )->getVoxelSize( ));
   
   float RescalaSlope           =  getParameters()->getRescaleSlope();
   float RescalaIntercept       =  getParameters()->getRescaleIntercept();

//EED
//      RescalaSlope            = 1;
//      RescalaIntercept        = 0;

   vtkImageShiftScale *scale = vtkImageShiftScale::New();
   scale->SetInput( crop->GetOutput( ) );
   scale->SetScale(RescalaSlope);
   scale->SetShift(0);
   scale->SetOutputScalarTypeToShort();
   scale->Update();
   vtkImageShiftScale *shift = vtkImageShiftScale::New();
   shift->SetInput( scale->GetOutput( ) );
   shift->SetScale(1); 
   shift->SetShift(RescalaIntercept);
   shift->SetOutputScalarTypeToShort();
   shift->Update();


   vtkImageThreshold *threshold = vtkImageThreshold::New();
   threshold->SetInput( shift->GetOutput( ) );
   threshold->ThresholdByUpper (-10000); 
   threshold->ThresholdByLower (-1); 
   threshold->SetInValue(0);   
   threshold->ReplaceOutOff ();
   threshold->ReplaceInOn ();
   threshold->SetOutputScalarTypeToUnsignedShort();
   
   vtkImageResample* ir = vtkImageResample::New( );
   ir->SetInput( threshold->GetOutput( ) );
   ir->SetDimensionality( 3 );
   double voxelSize= getParameters( )->getVoxelSize( );
   ir->SetAxisOutputSpacing( 0, voxelSize );
   ir->SetAxisOutputSpacing( 1, voxelSize );
   ir->SetAxisOutputSpacing( 2, voxelSize );


//      ir->SetAxisMagnificationFactor(0,1/getParameters( )->getVoxelSize( )); 

//EEDx1
   ir->InterpolateOn( );
//   ir->InterpolateOff( );


   ir->Update( );    //important
   ir->GetOutput()->GetExtent( ext );
 
   vtkImageChangeInformation* change = vtkImageChangeInformation::New();
   change->SetInput( ir->GetOutput() );
   change->SetExtentTranslation( -ext[0], -ext[2], -ext[4] );
   change->SetOutputSpacing ( voxelSize , voxelSize , voxelSize );
   change->Update();    //important
 
   _volume = new kVolume( change->GetOutput( ) );

        _marimagedata->AddImageData( _volume->castVtk() );
        double spc[3];
        vol->castVtk()->GetSpacing(spc);
        _marimagedata->SetSpcOriginal( spc );
        _marimagedata->SetVoiOriginal(voi);


   crop         -> Delete();
   ir           -> Delete();
   change       -> Delete();
   shift        -> Delete();
   scale        -> Delete();
   threshold-> Delete();
 }

Here is the call graph for this function:

Here is the caller graph for this function:

void marObject::makeACopyParameters

(

)

[inline, inherited]

Definition at line 48 of file marObject.h.

    {
            copyParameters( _parameters );
    }

bool marObject::parametersOwned

(

)

[inline, inherited]

Definition at line 56 of file marObject.h.

{ return( _parametersCopied ); };

void marDynData::reset

(

)

[virtual]

Virtual general methods (must be defined in each sub-class).

Implements marObject.

Definition at line 129 of file marDynData.cpp.

References _volume.

Referenced by copyFrom(), load(), loadData(), and ~marDynData().

{
  //Efface car _volume est juste un pointeur ver _volume de marGdcmDicom qui
  //est detruit par le reset correspondant
// PS ->   #ifndef DXMM
// PS ->   if( _volume ) delete _volume;
// PS ->   #endif
  _volume = NULL;
}

Here is the caller graph for this function:

bool marObject::save

(

std::string &

nw

)

[inherited]

Persistence methods

Definition at line 51 of file marObject.cpp.

References marObject::save().

{
    std::ofstream os( nw.c_str( ) );

    if( os ) {

        save( os );
        os.close( );
        return( true );

    } // fi

    return( false );
}

Here is the call graph for this function:

bool marDynData::save

(

std::ofstream &

os

)

[virtual]

Virtual persistence methods (must be defined in each sub-class).

Implements marObject.

Definition at line 147 of file marDynData.cpp.

References _volume.

Referenced by marExperiment::save().

{
    void* data = _volume->getData1D( );
    uint dims[ 3 ];
    ulong dSize = _volume->getRawSizeInBytes( );
    double sizes[ 3 ];
    kVolume::Type type = _volume->getType( );

    dims[ 0 ] = _volume->getXdim( );
    dims[ 1 ] = _volume->getYdim( );
    dims[ 2 ] = _volume->getZdim( );
    sizes[ 0 ] = _volume->getXsize( );
    sizes[ 1 ] = _volume->getYsize( );
    sizes[ 2 ] = _volume->getZsize( );

    os.write( ( const char* )dims, 3 * sizeof( uint ) );
    os.write( ( const char* )sizes, 3 * sizeof( double ) );
    os.write( ( const char* )&type, sizeof( kVolume::Type ) );
    os.write( ( const char* )&dSize, sizeof( ulong ) );
    os.write( ( const char* )data, dSize );

    return( true );
}

Here is the caller graph for this function:

void marObject::setParameters

(

marParameters *

p

)

[inherited]

Parameters assignation methods.

You can assign a marParameters object by reference (setParameters) or by value (copyParameters). Besides, if you want to make your actual reference to be by value, call makeACopyParameters.

Definition at line 34 of file marObject.cpp.

References marObject::_parameters, and marObject::_parametersCopied.

{
    if( _parametersCopied && _parameters != NULL ) delete _parameters;
    _parameters = p;
    _parametersCopied = false;
}

---

Member Data Documentation

marImageData* marDynData::_marimagedata [private]

Definition at line 55 of file marDynData.h.

Referenced by GetMarImageData(), loadData(), marDynData(), and ~marDynData().

kVolume* marDynData::_volume [private]

Definition at line 56 of file marDynData.h.

Referenced by copyFrom(), load(), loadData(), reset(), and save().

---

The documentation for this class was generated from the following files:

• /home/davila/Creatis/creaMaracasVisu/lib/maracasVisuLib/src/kernel/marDynData.h
• /home/davila/Creatis/creaMaracasVisu/lib/maracasVisuLib/src/kernel/marDynData.cpp