[ITK Community] Subimages

[Polfliet Mathias]

It  does help, thank you Brad. Just making sure I understood it clearly. What you mean is that I should use the Extract image filter every time I need the 3D slice? Instead of the way I do it now: Use it once, store all the separate 3D images into a std::vector and when I need them, I call the pointer from memory.

With kind regards,

Mathias

On 06 Mar 2014, at 13:35, Bradley Lowekamp <blowekamp at mail.nih.gov<mailto:blowekamp at mail.nih.gov>> wrote:

Hello,

Using the Extract image filter in a streaming fashion is very efficient. Additionally the filter can be run "in-place" so no copy of the data is required. What is your file type and how is is stored?

Just create an ExtractImageFilter connected to connected to a reader/series reader, then only update the Extract filter not the Reader. This will cause just a region of interest to be read and stream the pipeline. As long as the ImageIO supports streaming or you have a series, the IO/memory should be quite minimal.

Hope that help,
Brad

On Mar 6, 2014, at 3:31 AM, Cyril Jaudet <drcjaudet at gmail.com<mailto:drcjaudet at gmail.com>> wrote:

Hi,
 i have a similar problem to use a registration process on 4dPET images there is a multivolume explorer module architecture that seems to access in an efficient way to the multivolume data in 3Dslicer but it use vtk :
https://github.com/fedorov/MultiVolumeExplorer
Best Regards,

Jaudet Cyril, PSRPM, PhD

Département d'Ingénierie et de Physique Médicale

Institut Claudius Regaud

20-24, rue du Pont Saint-Pierre - 31052 Toulouse Cedex

Tél. interne:4801 /Tél. externe : 05 67 69 63 46

E-mail : jaudet.cyril at claudiusregaud.fr<mailto:jaudet.cyril at claudiusregaud.fr>


2014-03-06 9:07 GMT+01:00 Polfliet Mathias <mpolflie at etro.vub.ac.be<mailto:mpolflie at etro.vub.ac.be>>:
Dear ITK community,

Is there an elegant, CPU and/or memory efficient way provided in the source code to store or get “subimages" ( such as a single 2D slice in a 3D volume or a single time point in a 4D series)? Some functions I use take Images as input so I cannot use Regions. For example if I were to take a 4DCT image and I want to work on a single time point ( i.e. a 3D image), I would have to use ITK::ExtractImageFilter. This method, however, becomes very memory intensive because the 4DCT is loaded into the memory and (in my case) every separate 3D slice as well. Is there an elegant or CPU/Memory friendly way to work around this?

With kind regards,

Mathias Polfliet
PhD Student Vrije Universiteit Brussel
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