[Insight-users] 2d images defined as itk::image<type,3>

[Luis Ibanez]

Hi Maarten,

            Yes,
            ITK doesn't consider a 3D image of 1 slice
            to be equivalent to a 2D image.


Therefore, any filter that uses Neighborhoods, will most likely crash,
or run *very* slowly when feed with a 3D image of 1 slice.

For any Neighbord-based filters (Median, Mean, Gradient, Region
Growing, LevelSet.... pretty much everything except pixel-wise filters)
you will need separate pipelines for 3D images and 2D images.


You should probably have a separate code for converting 2D images
from Amira into 2D images in ITK ( as opposed to presenting them
as 3D images of 1 slice).

or...

You could use the itkExtractImageFilter in order to extract a 2D slice
from a 3D image. In this case, the output is really an itk 2D image
that you can feed as input to a 2D pipeline.


You will find an example on the use of the ExtractImageFilter
in the file:

         Insight/Examples/IO/ImageReadExtractWrite.cxx



BTW: It will be great if you contribute these conversion classes
         to the Insight Journal.

                            http://www.insight-journal.org/

         I'm sure that many users of Amira and ITK will find useful
         to have a mechanism for exchanging images between the
         two systems.



     Regards,


             Luis



----------------------------------------------------------------------------------------
On Thu, Jul 2, 2009 at 2:33 PM, Maarten Beek <mbeek at sri.utoronto.ca> wrote:

>
> I wrote classes to convert Amira's HxUniformScalarField3 into Itk's
> itk::Image and vice versa.
> I hard-coded the dimension of the itk::Image to 3 (since Amira's class
> represents a 3d image as well).
>
> However, I have noticed that some itk filters don't work correctly after
> converting a 2d HxUniformScalarField3 (e.g. one slice) into an
> itk::Image<type,3>. I think this has to do with the iterators in Itk (these
> are templated over the dimension as well).
>
> Is this true and is there some work-around to get every
> HxUniformScalarField3 (2d and 3d) converted into a itk::Image<type,3>?
>
> Thanks - Maarten
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