Ok, thanks.
I think i will currntly let my vtkImageData solution
PS: the itkTileImageFilter can combine 3D itkimages to a 4D image
theoretically, not tested but should work
Von: Hering, Jan [mailto:[email protected]]
Gesendet: Donnerstag, 12. April 2012 13:43
An: Lodron, Gerald
Cc: MITK ([email protected])
Betreff: AW: 4D image initialization form itk 3d image stack
Hi Lodron,
ad 1) you would actually need to convert only one of your 3D images, as long as
they all have the same geometry. If not, you need to initialize each time step
of the time sliced geometry with geom->SetGeometry3D( vector_of_images[ t
]->GetGeometry(), t ).
The Geometry3D can be created also directly by accessing the ITK image, but you
have to set all essential parts manually:
geom->SetOrigin( itkImage->GetOrigin() ),and so on for Spacing, Direction,
Center
ad 2) the time sliced geometry can be passed to an 4D image by the method
void mitk::Image::Initialize( PixelType, Geometry* )
Another possibility would be to create an 4D ITK image, and fill this by
iterating over the 3D vector and then over each image. As far as I know ITK
does not provide a filter for combining 3D Volumes to a single 4D Dataset.
I have also added a feature-request to our bug tracker so the issue will get
discussed and possible also implemented. You can follow the activity here (
http://bugs.mitk.org/show_bug.cgi?id=11676 )
Regards,
Jan
Von: Lodron, Gerald
[mailto:[email protected]]<mailto:[mailto:[email protected]]>
Gesendet: Donnerstag, 12. April 2012 12:14
An: Hering, Jan
Cc: MITK
([email protected]<mailto:[email protected]>)
Betreff: AW: 4D image initialization form itk 3d image stack
Hi
I currently made it over converting it to a vtkImagedata but it looks awful:
typedef itk::ImageToVTKImageFilter<TImage3D_US> TVTKConverter;
TVTKConverter::Pointer oC = TVTKConverter::New();
oC->SetInput(o3DImageStack.at(0).GetPointer());
oC->Update();
oImage->Initialize(oC->GetOutput(),1,o3DImageStack.size());
oImage->SetVolume(oC->GetOutput()->GetScalarPointer(), 0);
for(unsigned int i=1; i<o3DImageStack.size(); i++)
{
oC->SetInput(o3DImageStack.at(i).GetPointer());
oC->Update();
oImage->SetVolume(oC->GetOutput()->GetScalarPointer(), i);
}
Your solution over the timeslicedgeometry does not work (for me :)):
1) m_VectorOf3DImages[ 0 ]->GetGeometry -> there is no GetGeometry of an
itk::Image. Should I first convert it to a mitk::Image?
2) There is not mitk::Image::SetTimeSlicedGeometry method in mitk::Image, only
a getter which returns a constant. So how do I combine the timeslicedgeometry
with the mitk::Image (over SetGeometry?)
Best regards
Von: Hering, Jan [mailto:[email protected]]
Gesendet: Donnerstag, 12. April 2012 12:03
An: Lodron, Gerald; MITK
([email protected]<mailto:[email protected]>)
Betreff: AW: 4D image initialization form itk 3d image stack
Hi Lodron,
the method Image::InitializeByItk can't extend or change the dimensionality of
the image. So with the call
mitkImage->InitializeByItk( SomeITK-3D-Image, ...)
the mitkImage will have the same dimensionality ( i.e. 3 ) and also same
dimension sizes. The remaining parameters in the function definition can
change the corresponding dimension size but ONLY if the dimension is available
in the given input image.
Solution for your problem is to create an mitk::Image with 4 dimensions, and
also initialize it with a TimeSlicedGeometry:
Could look like:
mitk::Image::Pointer image4D = mitk::Image::New();
mitk::TimeSlicedGeometry::Pointer geom = mitk::TimeSlicedGeometry::New();
geom->InitializeEvenlyTimed( m_VectorOf3DImages[ 0 ]->GetGeometry(),
m_VectorOf3DImages.size() );
Regards,
Jan
Von: Lodron, Gerald
[mailto:[email protected]]<mailto:[mailto:[email protected]]>
Gesendet: Donnerstag, 12. April 2012 10:59
An: MITK
([email protected]<mailto:[email protected]>)
Betreff: [mitk-users] 4D image initialization form itk 3d image stack
Hi
I try to make a 4d mitk image form a stack of 3d itk images (gray), can anyone
tell me what i am making wrong:
Std::vector<itk::Image<unsigned short, 3>::Pointer> o3DImageStack;//my filled
itk image array
mitk::DataNode::Pointer oNode = mitk::DataNode::New();
mitk::Image::Pointer oImage = mitk::Image::New();
oImage->InitializeByItk(o3DImageStack.at(0).GetPointer(),1,o3DImageStack.size());
for(unsigned int i=0; i<o3DImageStack.size(); i++)
{
oImage->SetVolume(o3DImageStack.at(i)->GetBufferPointer(), i);
}
oNode->SetData(oImage);
oDS.Add(oNode);
In the mitk GUI the image has only 1 time step in timeslicedgeometry
Best regards
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