[Tubetk-developers] Some problem about vessel's center line

[Stephen Aylward]

Hi,

Congratulations on great progress!

Please confirm that you are using ITK version 5.1rc01 or later (e.g.,
compile from github master).

If you are using pip, the command is

> pip install --pre itk

Versions of ITK prior to 5.1rc01 contained a bug when reading
SpatialObjects.

Once you have confirmed that you are using that release of ITK, if the
problem persists, please try converting the tubes to an image and then
displaying both images in ParaView.  Example code for converting tubes to
images is given here:

https://github.com/KitwareMedical/ITKTubeTK/blob/master/examples/ConvertTubesToImage.ipynb

The reason to try converting to an image instead of using discrete points
is that ParaView and ITK use different spaces (RAS versus LPS, I believe),
so rendering images and points from ITK may require a coordinate transform
to keep them aligned.

On Mon, Jan 13, 2020 at 9:12 PM 吴松雄 via Tubetk-developers <
tubetk-developers at public.kitware.com> wrote:

> Dear
>     Thanks so much for response . I tried to convert the tre file to a vtp
> file using the following code. The vtp files were read using ParaView
> software. But we found that the center line of this vessel did not
> correspond to the original picture, did we miss something?I'm grateful if I
> could hear from you in your spare time.
> Best regards
> songxiong wu
>
> this is the code:
> import itk
> file_name = 'VascularNetwork.tre'
> Dimension = 3
> reader = itk.SpatialObjectReader[Dimension].New()
> reader.SetFileName(file_name)
> reader.Update()
> tubes = reader.GetGroup()
> print(tubes)
> writer = itk.SpatialObjectWriter[Dimension].New()
> writer.SetInput(tubes)
> writer.SetFileName('VascularNetwork.vtp')
> writer.Update()
>
> this is the result showed in ParaView software:
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>


-- 
Stephen R. Aylward, Ph.D.
Senior Director of Strategic Initiatives
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