I have been using the analyseniftiio plugin to open .nii files in paraview.
In Slicer 4.6.2 they do not occupy the same physical space. The
direction is different although the origin is the same.
Thanks
On 14/11/16 22:11, Cory Quammen wrote:
Are you somehow opening these files in ParaView? I was not able to
either gzipped or not, which is what I expect because ParaView does
not have a Nifti reader to my knowledge.
In Slicer, which can open these files, the volumes are reported to
occupy the same space with an origin at (102.536, 106.413, 30.149).
Please provide more details, step-by-step, about how you are viewing
these files in ParaView.
Thanks,
Cory
On Mon, Nov 14, 2016 at 10:29 AM, padraig <[email protected]> wrote:
Attached are two volumes that have an overlap in paraview but the ITK volume
I find using the code below means there should be no overlap
On 14/11/16 15:09, Cory Quammen wrote:
MHA and NIFTII definitely contain position information that ParaView
should read. Do you have any small-ish representative volumes you can
share (privately with me if needed).
On Mon, Nov 14, 2016 at 10:04 AM, padraig <[email protected]>
wrote:
I have used MHA and NIFTII. I have converted the MHA into NIFTII using
both
c3d and ITK.
On 14/11/16 14:59, Cory Quammen wrote:
What file format are you using to load the volumes into ParaView? A
number of formats support volume positioning, so this should be
possible, unless you are loading a series of TIFF images, for example.
Thanks,
Cory
On Mon, Nov 14, 2016 at 5:32 AM, padraig <[email protected]>
wrote:
Dear list,
I have been having problems with the positioning of volumes using
Paraview.
ITK tells me that, using,
IteratorType it2( img_input,
img_input->GetLargestPossibleRegion()
);
it2.GoToBegin();
ImageType::IndexType begin = it2.GetIndex();
img_input->TransformIndexToPhysicalPoint(it2.GetIndex(),p0);
it2.GoToEnd();
--it2;
img_input->TransformIndexToPhysicalPoint(it2.GetIndex(),p1);
std::cout << p0 << p1 << std::endl;
two volumes I have have the positions
[-102.536, -106.413, 30.1491][102.512, 106.414, 177.564]
and
[-102.536, -106.413, 30.1491][102.512, 106.414, -117.265]
When I load these into Paraview they occupy the same volume. In
Slicer3D
the
volumes are distinct as I expect above.
Thanks
Pádraig
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