void mitk::ConnectomicsNetworkCreator::CreateNetworkFromFibersAndSegmentation()
{
//empty graph
m_ConNetwork->clear();
m_LabelToVertexMap.clear();
m_LabelToNodePropertyMap.clear();
vtkSmartPointer<vtkPolyData> fiberPolyData = m_FiberBundle->GetFiberPolyData();
vtkSmartPointer<vtkCellArray> vLines = fiberPolyData->GetLines();
vLines->InitTraversal();
int numFibers = m_FiberBundle->GetNumFibers();
for( int fiberID( 0 ); fiberID < numFibers; fiberID++ )
{
vtkIdType numPointsInCell(0);
vtkIdType* pointsInCell(NULL);
vLines->GetNextCell ( numPointsInCell, pointsInCell );
TractType::Pointer singleTract = TractType::New();
for( int pointInCellID( 0 ); pointInCellID < numPointsInCell ; pointInCellID++)
{
// push back point
PointType point = GetItkPoint( fiberPolyData->GetPoint( pointsInCell[ pointInCellID ] ) );
singleTract->InsertElement( singleTract->Size(), point );
}
//MappingStrategy strategy = EndElementPosition;
//MappingStrategy strategy = JustEndPointVerticesNoLabel;
MappingStrategy strategy = EndElementPositionAvoidingWhiteMatter;
if ( singleTract && ( singleTract->Size() > 0 ) )
{
AddConnectionToNetwork(
ReturnAssociatedVertexPairForLabelPair(
ReturnLabelForFiberTract( singleTract, strategy )
)
);
}
}
// Prune unconnected nodes
m_ConNetwork->PruneUnconnectedSingleNodes();
// provide network with geometry
m_ConNetwork->SetGeometry( m_Segmentation->GetGeometry() );
m_ConNetwork->UpdateBounds();
m_ConNetwork->SetIsModified( true );
MBI_INFO << mitk::ConnectomicsConstantsManager::CONNECTOMICS_WARNING_INFO_NETWORK_CREATED;
}
void mitk::ConnectomicsNetworkCreator::CreateNetworkFromFibersAndSegmentation()
{
//empty graph
m_ConNetwork = mitk::ConnectomicsNetwork::New();
m_LabelToVertexMap.clear();
m_LabelToNodePropertyMap.clear();
idCounter = 0;
vtkSmartPointer<vtkPolyData> fiberPolyData = m_FiberBundle->GetFiberPolyData();
int numFibers = m_FiberBundle->GetNumFibers();
for( int fiberID( 0 ); fiberID < numFibers; fiberID++ )
{
vtkCell* cell = fiberPolyData->GetCell(fiberID);
int numPoints = cell->GetNumberOfPoints();
vtkPoints* points = cell->GetPoints();
TractType::Pointer singleTract = TractType::New();
for( int pointInCellID( 0 ); pointInCellID < numPoints ; pointInCellID++)
{
// push back point
PointType point = GetItkPoint( points->GetPoint( pointInCellID ) );
singleTract->InsertElement( singleTract->Size(), point );
}
if ( singleTract && ( singleTract->Size() > 0 ) )
{
AddConnectionToNetwork(
ReturnAssociatedVertexPairForLabelPair(
ReturnLabelForFiberTract( singleTract, m_MappingStrategy )
)
);
m_AbortConnection = false;
}
}
// Prune unconnected nodes
//m_ConNetwork->PruneUnconnectedSingleNodes();
// provide network with geometry
m_ConNetwork->SetGeometry( dynamic_cast<mitk::BaseGeometry*>(m_Segmentation->GetGeometry()->Clone().GetPointer()) );
m_ConNetwork->UpdateBounds();
m_ConNetwork->SetIsModified( true );
MBI_INFO << mitk::ConnectomicsConstantsManager::CONNECTOMICS_WARNING_INFO_NETWORK_CREATED;
}
void TractDensityImageFilter< OutputImageType >::GenerateData()
{
// generate upsampled image
mitk::Geometry3D::Pointer geometry = m_FiberBundle->GetGeometry();
typename OutputImageType::Pointer outImage = this->GetOutput();
// calculate new image parameters
mitk::Vector3D newSpacing;
mitk::Point3D newOrigin;
itk::Matrix<double, 3, 3> newDirection;
ImageRegion<3> upsampledRegion;
if (m_UseImageGeometry && !m_InputImage.IsNull())
{
MITK_INFO << "TractDensityImageFilter: using image geometry";
newSpacing = m_InputImage->GetSpacing()/m_UpsamplingFactor;
upsampledRegion = m_InputImage->GetLargestPossibleRegion();
newOrigin = m_InputImage->GetOrigin();
typename OutputImageType::RegionType::SizeType size = upsampledRegion.GetSize();
size[0] *= m_UpsamplingFactor;
size[1] *= m_UpsamplingFactor;
size[2] *= m_UpsamplingFactor;
upsampledRegion.SetSize(size);
newDirection = m_InputImage->GetDirection();
}
else
{
MITK_INFO << "TractDensityImageFilter: using fiber bundle geometry";
newSpacing = geometry->GetSpacing()/m_UpsamplingFactor;
newOrigin = geometry->GetOrigin();
mitk::Geometry3D::BoundsArrayType bounds = geometry->GetBounds();
newOrigin[0] += bounds.GetElement(0);
newOrigin[1] += bounds.GetElement(2);
newOrigin[2] += bounds.GetElement(4);
for (int i=0; i<3; i++)
for (int j=0; j<3; j++)
newDirection[j][i] = geometry->GetMatrixColumn(i)[j];
upsampledRegion.SetSize(0, geometry->GetExtent(0)*m_UpsamplingFactor);
upsampledRegion.SetSize(1, geometry->GetExtent(1)*m_UpsamplingFactor);
upsampledRegion.SetSize(2, geometry->GetExtent(2)*m_UpsamplingFactor);
}
typename OutputImageType::RegionType::SizeType upsampledSize = upsampledRegion.GetSize();
// apply new image parameters
outImage->SetSpacing( newSpacing );
outImage->SetOrigin( newOrigin );
outImage->SetDirection( newDirection );
outImage->SetRegions( upsampledRegion );
outImage->Allocate();
outImage->FillBuffer(0.0);
int w = upsampledSize[0];
int h = upsampledSize[1];
int d = upsampledSize[2];
// set/initialize output
OutPixelType* outImageBufferPointer = (OutPixelType*)outImage->GetBufferPointer();
// resample fiber bundle
float minSpacing = 1;
if(newSpacing[0]<newSpacing[1] && newSpacing[0]<newSpacing[2])
minSpacing = newSpacing[0];
else if (newSpacing[1] < newSpacing[2])
minSpacing = newSpacing[1];
else
minSpacing = newSpacing[2];
MITK_INFO << "TractDensityImageFilter: resampling fibers to ensure sufficient voxel coverage";
m_FiberBundle = m_FiberBundle->GetDeepCopy();
m_FiberBundle->ResampleFibers(minSpacing);
MITK_INFO << "TractDensityImageFilter: starting image generation";
vtkSmartPointer<vtkPolyData> fiberPolyData = m_FiberBundle->GetFiberPolyData();
vtkSmartPointer<vtkCellArray> vLines = fiberPolyData->GetLines();
vLines->InitTraversal();
int numFibers = m_FiberBundle->GetNumFibers();
boost::progress_display disp(numFibers);
for( int i=0; i<numFibers; i++ )
{
++disp;
vtkIdType numPoints(0);
vtkIdType* points(NULL);
vLines->GetNextCell ( numPoints, points );
// fill output image
for( int j=0; j<numPoints; j++)
{
itk::Point<float, 3> vertex = GetItkPoint(fiberPolyData->GetPoint(points[j]));
itk::Index<3> index;
itk::ContinuousIndex<float, 3> contIndex;
outImage->TransformPhysicalPointToIndex(vertex, index);
outImage->TransformPhysicalPointToContinuousIndex(vertex, contIndex);
float frac_x = contIndex[0] - index[0];
float frac_y = contIndex[1] - index[1];
float frac_z = contIndex[2] - index[2];
if (frac_x<0)
{
index[0] -= 1;
frac_x += 1;
}
if (frac_y<0)
{
index[1] -= 1;
frac_y += 1;
}
if (frac_z<0)
{
index[2] -= 1;
frac_z += 1;
}
frac_x = 1-frac_x;
frac_y = 1-frac_y;
frac_z = 1-frac_z;
// int coordinates inside image?
if (index[0] < 0 || index[0] >= w-1)
continue;
if (index[1] < 0 || index[1] >= h-1)
continue;
if (index[2] < 0 || index[2] >= d-1)
continue;
if (m_BinaryOutput)
{
outImageBufferPointer[( index[0] + w*(index[1] + h*index[2] ))] = 1;
outImageBufferPointer[( index[0] + w*(index[1]+1+ h*index[2] ))] = 1;
outImageBufferPointer[( index[0] + w*(index[1] + h*index[2]+h))] = 1;
outImageBufferPointer[( index[0] + w*(index[1]+1+ h*index[2]+h))] = 1;
outImageBufferPointer[( index[0]+1 + w*(index[1] + h*index[2] ))] = 1;
outImageBufferPointer[( index[0]+1 + w*(index[1] + h*index[2]+h))] = 1;
outImageBufferPointer[( index[0]+1 + w*(index[1]+1+ h*index[2] ))] = 1;
outImageBufferPointer[( index[0]+1 + w*(index[1]+1+ h*index[2]+h))] = 1;
}
else
{
outImageBufferPointer[( index[0] + w*(index[1] + h*index[2] ))] += ( frac_x)*( frac_y)*( frac_z);
outImageBufferPointer[( index[0] + w*(index[1]+1+ h*index[2] ))] += ( frac_x)*(1-frac_y)*( frac_z);
outImageBufferPointer[( index[0] + w*(index[1] + h*index[2]+h))] += ( frac_x)*( frac_y)*(1-frac_z);
outImageBufferPointer[( index[0] + w*(index[1]+1+ h*index[2]+h))] += ( frac_x)*(1-frac_y)*(1-frac_z);
outImageBufferPointer[( index[0]+1 + w*(index[1] + h*index[2] ))] += (1-frac_x)*( frac_y)*( frac_z);
outImageBufferPointer[( index[0]+1 + w*(index[1] + h*index[2]+h))] += (1-frac_x)*( frac_y)*(1-frac_z);
outImageBufferPointer[( index[0]+1 + w*(index[1]+1+ h*index[2] ))] += (1-frac_x)*(1-frac_y)*( frac_z);
outImageBufferPointer[( index[0]+1 + w*(index[1]+1+ h*index[2]+h))] += (1-frac_x)*(1-frac_y)*(1-frac_z);
}
}
}
if (!m_OutputAbsoluteValues && !m_BinaryOutput)
{
MITK_INFO << "TractDensityImageFilter: max-normalizing output image";
OutPixelType max = 0;
for (int i=0; i<w*h*d; i++)
if (max < outImageBufferPointer[i])
max = outImageBufferPointer[i];
if (max>0)
for (int i=0; i<w*h*d; i++)
outImageBufferPointer[i] /= max;
}
if (m_InvertImage)
{
MITK_INFO << "TractDensityImageFilter: inverting image";
for (int i=0; i<w*h*d; i++)
outImageBufferPointer[i] = 1-outImageBufferPointer[i];
}
MITK_INFO << "TractDensityImageFilter: finished processing";
}
void TractsToVectorImageFilter< PixelType >::GenerateData()
{
mitk::BaseGeometry::Pointer geometry = m_FiberBundle->GetGeometry();
// calculate new image parameters
itk::Vector<double> spacing;
itk::Point<double> origin;
itk::Matrix<double, 3, 3> direction;
ImageRegion<3> imageRegion;
if (!m_MaskImage.IsNull())
{
spacing = m_MaskImage->GetSpacing();
imageRegion = m_MaskImage->GetLargestPossibleRegion();
origin = m_MaskImage->GetOrigin();
direction = m_MaskImage->GetDirection();
}
else
{
spacing = geometry->GetSpacing();
origin = geometry->GetOrigin();
mitk::BaseGeometry::BoundsArrayType bounds = geometry->GetBounds();
origin[0] += bounds.GetElement(0);
origin[1] += bounds.GetElement(2);
origin[2] += bounds.GetElement(4);
for (int i=0; i<3; i++)
for (int j=0; j<3; j++)
direction[j][i] = geometry->GetMatrixColumn(i)[j];
imageRegion.SetSize(0, geometry->GetExtent(0));
imageRegion.SetSize(1, geometry->GetExtent(1));
imageRegion.SetSize(2, geometry->GetExtent(2));
m_MaskImage = ItkUcharImgType::New();
m_MaskImage->SetSpacing( spacing );
m_MaskImage->SetOrigin( origin );
m_MaskImage->SetDirection( direction );
m_MaskImage->SetRegions( imageRegion );
m_MaskImage->Allocate();
m_MaskImage->FillBuffer(1);
}
OutputImageType::RegionType::SizeType outImageSize = imageRegion.GetSize();
m_OutImageSpacing = m_MaskImage->GetSpacing();
m_ClusteredDirectionsContainer = ContainerType::New();
// initialize num directions image
m_NumDirectionsImage = ItkUcharImgType::New();
m_NumDirectionsImage->SetSpacing( spacing );
m_NumDirectionsImage->SetOrigin( origin );
m_NumDirectionsImage->SetDirection( direction );
m_NumDirectionsImage->SetRegions( imageRegion );
m_NumDirectionsImage->Allocate();
m_NumDirectionsImage->FillBuffer(0);
// initialize direction images
m_DirectionImageContainer = DirectionImageContainerType::New();
// resample fiber bundle
double minSpacing = 1;
if(m_OutImageSpacing[0]<m_OutImageSpacing[1] && m_OutImageSpacing[0]<m_OutImageSpacing[2])
minSpacing = m_OutImageSpacing[0];
else if (m_OutImageSpacing[1] < m_OutImageSpacing[2])
minSpacing = m_OutImageSpacing[1];
else
minSpacing = m_OutImageSpacing[2];
if (m_UseWorkingCopy)
m_FiberBundle = m_FiberBundle->GetDeepCopy();
// resample fiber bundle for sufficient voxel coverage
m_FiberBundle->ResampleSpline(minSpacing/10);
// iterate over all fibers
vtkSmartPointer<vtkPolyData> fiberPolyData = m_FiberBundle->GetFiberPolyData();
int numFibers = m_FiberBundle->GetNumFibers();
m_DirectionsContainer = ContainerType::New();
VectorContainer< unsigned int, std::vector< double > >::Pointer peakLengths = VectorContainer< unsigned int, std::vector< double > >::New();
MITK_INFO << "Generating directions from tractogram";
boost::progress_display disp(numFibers);
for( int i=0; i<numFibers; i++ )
{
++disp;
vtkCell* cell = fiberPolyData->GetCell(i);
int numPoints = cell->GetNumberOfPoints();
vtkPoints* points = cell->GetPoints();
if (numPoints<2)
continue;
vnl_vector_fixed<double, 3> dir;
itk::Point<double, 3> worldPos;
vnl_vector<double> v;
float fiberWeight = m_FiberBundle->GetFiberWeight(i);
for( int j=0; j<numPoints-1; j++)
{
// get current position along fiber in world coordinates
double* temp = points->GetPoint(j);
worldPos = GetItkPoint(temp);
itk::Index<3> index;
m_MaskImage->TransformPhysicalPointToIndex(worldPos, index);
if (!m_MaskImage->GetLargestPossibleRegion().IsInside(index) || m_MaskImage->GetPixel(index)==0)
continue;
// get fiber tangent direction at this position
v = GetVnlVector(temp);
dir = GetVnlVector(points->GetPoint(j+1))-v;
if (dir.is_zero())
continue;
dir.normalize();
// add direction to container
unsigned int idx = index[0] + outImageSize[0]*(index[1] + outImageSize[1]*index[2]);
DirectionContainerType::Pointer dirCont;
if (m_DirectionsContainer->IndexExists(idx))
{
peakLengths->ElementAt(idx).push_back(fiberWeight);
dirCont = m_DirectionsContainer->GetElement(idx);
if (dirCont.IsNull())
{
dirCont = DirectionContainerType::New();
dirCont->push_back(dir);
m_DirectionsContainer->InsertElement(idx, dirCont);
}
else
dirCont->push_back(dir);
}
else
{
dirCont = DirectionContainerType::New();
dirCont->push_back(dir);
m_DirectionsContainer->InsertElement(idx, dirCont);
std::vector< double > lengths; lengths.push_back(fiberWeight);
peakLengths->InsertElement(idx, lengths);
}
}
}
vtkSmartPointer<vtkCellArray> m_VtkCellArray = vtkSmartPointer<vtkCellArray>::New();
vtkSmartPointer<vtkPoints> m_VtkPoints = vtkSmartPointer<vtkPoints>::New();
itk::ImageRegionIterator<ItkUcharImgType> dirIt(m_NumDirectionsImage, m_NumDirectionsImage->GetLargestPossibleRegion());
MITK_INFO << "Clustering directions";
boost::progress_display disp2(outImageSize[0]*outImageSize[1]*outImageSize[2]);
while(!dirIt.IsAtEnd())
{
++disp2;
OutputImageType::IndexType index = dirIt.GetIndex();
int idx = index[0]+(index[1]+index[2]*outImageSize[1])*outImageSize[0];
if (!m_DirectionsContainer->IndexExists(idx))
{
++dirIt;
continue;
}
DirectionContainerType::Pointer dirCont = m_DirectionsContainer->GetElement(idx);
if (dirCont.IsNull() || dirCont->empty())
{
++dirIt;
continue;
}
// std::vector< double > lengths; lengths.resize(dirCont->size(), 1); // all peaks have size 1
DirectionContainerType::Pointer directions;
if (m_MaxNumDirections>0)
{
directions = FastClustering(dirCont, peakLengths->GetElement(idx));
std::sort( directions->begin(), directions->end(), CompareVectorLengths );
}
else
directions = dirCont;
unsigned int numDir = directions->size();
if (m_MaxNumDirections>0 && numDir>m_MaxNumDirections)
numDir = m_MaxNumDirections;
int count = 0;
for (unsigned int i=0; i<numDir; i++)
{
vtkSmartPointer<vtkPolyLine> container = vtkSmartPointer<vtkPolyLine>::New();
itk::ContinuousIndex<double, 3> center;
center[0] = index[0];
center[1] = index[1];
center[2] = index[2];
itk::Point<double> worldCenter;
m_MaskImage->TransformContinuousIndexToPhysicalPoint( center, worldCenter );
DirectionType dir = directions->at(i);
if (dir.magnitude()<m_SizeThreshold)
continue;
if (m_NormalizeVectors)
dir.normalize();
count++;
if (m_CreateDirectionImages && i<10)
{
if (i==m_DirectionImageContainer->size())
{
ItkDirectionImageType::Pointer directionImage = ItkDirectionImageType::New();
directionImage->SetSpacing( spacing );
directionImage->SetOrigin( origin );
directionImage->SetDirection( direction );
directionImage->SetRegions( imageRegion );
directionImage->Allocate();
Vector< float, 3 > nullVec; nullVec.Fill(0.0);
directionImage->FillBuffer(nullVec);
m_DirectionImageContainer->InsertElement(i, directionImage);
}
// set direction image pixel
ItkDirectionImageType::Pointer directionImage = m_DirectionImageContainer->GetElement(i);
Vector< float, 3 > pixel;
pixel.SetElement(0, dir[0]);
pixel.SetElement(1, dir[1]);
pixel.SetElement(2, dir[2]);
directionImage->SetPixel(index, pixel);
}
// add direction to vector field (with spacing compensation)
itk::Point<double> worldStart;
worldStart[0] = worldCenter[0]-dir[0]/2*minSpacing;
worldStart[1] = worldCenter[1]-dir[1]/2*minSpacing;
worldStart[2] = worldCenter[2]-dir[2]/2*minSpacing;
vtkIdType id = m_VtkPoints->InsertNextPoint(worldStart.GetDataPointer());
container->GetPointIds()->InsertNextId(id);
itk::Point<double> worldEnd;
worldEnd[0] = worldCenter[0]+dir[0]/2*minSpacing;
worldEnd[1] = worldCenter[1]+dir[1]/2*minSpacing;
worldEnd[2] = worldCenter[2]+dir[2]/2*minSpacing;
id = m_VtkPoints->InsertNextPoint(worldEnd.GetDataPointer());
container->GetPointIds()->InsertNextId(id);
m_VtkCellArray->InsertNextCell(container);
}
dirIt.Set(count);
++dirIt;
}
vtkSmartPointer<vtkPolyData> directionsPolyData = vtkSmartPointer<vtkPolyData>::New();
directionsPolyData->SetPoints(m_VtkPoints);
directionsPolyData->SetLines(m_VtkCellArray);
m_OutputFiberBundle = mitk::FiberBundle::New(directionsPolyData);
}
void TractsToFiberEndingsImageFilter< OutputImageType >::GenerateData()
{
// generate upsampled image
mitk::Geometry3D::Pointer geometry = m_FiberBundle->GetGeometry();
typename OutputImageType::Pointer outImage = this->GetOutput();
// calculate new image parameters
mitk::Vector3D newSpacing;
mitk::Point3D newOrigin;
itk::Matrix<double, 3, 3> newDirection;
ImageRegion<3> upsampledRegion;
if (m_UseImageGeometry && !m_InputImage.IsNull())
{
newSpacing = m_InputImage->GetSpacing()/m_UpsamplingFactor;
upsampledRegion = m_InputImage->GetLargestPossibleRegion();
newOrigin = m_InputImage->GetOrigin();
typename OutputImageType::RegionType::SizeType size = upsampledRegion.GetSize();
size[0] *= m_UpsamplingFactor;
size[1] *= m_UpsamplingFactor;
size[2] *= m_UpsamplingFactor;
upsampledRegion.SetSize(size);
newDirection = m_InputImage->GetDirection();
}
else
{
newSpacing = geometry->GetSpacing()/m_UpsamplingFactor;
newOrigin = geometry->GetOrigin();
mitk::Geometry3D::BoundsArrayType bounds = geometry->GetBounds();
newOrigin[0] += bounds.GetElement(0);
newOrigin[1] += bounds.GetElement(2);
newOrigin[2] += bounds.GetElement(4);
for (int i=0; i<3; i++)
for (int j=0; j<3; j++)
newDirection[j][i] = geometry->GetMatrixColumn(i)[j];
upsampledRegion.SetSize(0, geometry->GetExtent(0)*m_UpsamplingFactor);
upsampledRegion.SetSize(1, geometry->GetExtent(1)*m_UpsamplingFactor);
upsampledRegion.SetSize(2, geometry->GetExtent(2)*m_UpsamplingFactor);
}
typename OutputImageType::RegionType::SizeType upsampledSize = upsampledRegion.GetSize();
// apply new image parameters
outImage->SetSpacing( newSpacing );
outImage->SetOrigin( newOrigin );
outImage->SetDirection( newDirection );
outImage->SetRegions( upsampledRegion );
outImage->Allocate();
int w = upsampledSize[0];
int h = upsampledSize[1];
int d = upsampledSize[2];
// set/initialize output
OutPixelType* outImageBufferPointer = (OutPixelType*)outImage->GetBufferPointer();
for (int i=0; i<w*h*d; i++)
outImageBufferPointer[i] = 0;
// resample fiber bundle
float minSpacing = 1;
if(newSpacing[0]<newSpacing[1] && newSpacing[0]<newSpacing[2])
minSpacing = newSpacing[0];
else if (newSpacing[1] < newSpacing[2])
minSpacing = newSpacing[1];
else
minSpacing = newSpacing[2];
vtkSmartPointer<vtkPolyData> fiberPolyData = m_FiberBundle->GetFiberPolyData();
vtkSmartPointer<vtkCellArray> vLines = fiberPolyData->GetLines();
vLines->InitTraversal();
int numFibers = m_FiberBundle->GetNumFibers();
boost::progress_display disp(numFibers);
for( int i=0; i<numFibers; i++ )
{
++disp;
vtkIdType numPoints(0);
vtkIdType* points(NULL);
vLines->GetNextCell ( numPoints, points );
// fill output image
if (numPoints>0)
{
itk::Point<float, 3> vertex = GetItkPoint(fiberPolyData->GetPoint(points[0]));
itk::Index<3> index;
outImage->TransformPhysicalPointToIndex(vertex, index);
if (m_BinaryOutput)
outImage->SetPixel(index, 1);
else
outImage->SetPixel(index, outImage->GetPixel(index)+1);
}
if (numPoints>2)
{
itk::Point<float, 3> vertex = GetItkPoint(fiberPolyData->GetPoint(points[numPoints-1]));
itk::Index<3> index;
outImage->TransformPhysicalPointToIndex(vertex, index);
if (m_BinaryOutput)
outImage->SetPixel(index, 1);
else
outImage->SetPixel(index, outImage->GetPixel(index)+1);
}
}
if (m_InvertImage)
for (int i=0; i<w*h*d; i++)
outImageBufferPointer[i] = 1-outImageBufferPointer[i];
}
