[Insight-developers] preprocessing for ImageSeriesReader?

[Bradley Lowekamp]

There is the example:

Insight/Examples/IO/VisibleHumanStreamReadWrite.cxx

Which may be a starting point, after the multiple RGB readers are removed.

Brad

On May 7, 2010, at 8:34 AM, Lowekamp, Bradley (NIH/NLM/LHC) [C] wrote:

> Hello Richard,
> 
> This really does sounds like a good use of streaming. Why does streaming not meet your needs? 
> 
> I have processed the entire visible human data-set on 32-bit systems this way. It works very well. It usually goes as follows:
> 
> ImageSeriesReader
> CropImageFIlter
> RecursiveGaussianImageFilter (X)
> RecursiveGaussianImageFilter (Y)
> ShrinkImageFilter
> StreamingImageFilter (set the number of updates to the number of slices )
> 
> If you are interested in this approach, I may be able to convert my code to an example.
> 
> Bills approach will also work, but will require a little more manual pipeline manipulation. Were as with streaming you must ensure that the filter correctly supports streaming. I will admit I am biased towards streaming.
> 
> Good luck,
> Brad
> 
> On May 7, 2010, at 7:57 AM, Richard Beare wrote:
> 
>> Hi,
>> I don't think this is a job for slice by slice or streaming filters. I
>> have a large number of slices that I need to convert to a 3D image.
>> However each slice needs to go through a couple of steps. I can do
>> this by writing each new images for each slice and then using the
>> SeriesReader in the normal way. However I'd like to try to optimize
>> the process by integrating everything. It isn't a big deal if it isn't
>> possible, but it would be cute to try the integrated approach.
>> 
>> On Fri, May 7, 2010 at 1:14 AM, Bradley Lowekamp <blowekamp at mail.nih.gov> wrote:
>>> Hello,
>>> 
>>> Is is possible that you are looking to perform out-of-core / streaming
>>> processing? Or there is the SliceBySliceImageFilter in memory is not an
>>> issue.
>>> Brad
>>> 
>>> 
>>> 
>>> 
>>> On May 4, 2010, at 2:04 AM, Richard Beare wrote:
>>> 
>>> Hi,
>>> I was wondering whether there might be a trick that would allow a
>>> slice based preprocessing pipeline to be attached to an image series
>>> reader. My particular example is cropping and scaling of each slice
>>> before assembling a 3D volume. Perhaps assembling a special slice
>>> reader is the way to go? Any other C++ tricks that might work?
>>> 
>>> Thanks
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>>> ========================================================
>>> 
>>> Bradley Lowekamp
>>> 
>>> Lockheed Martin Contractor for
>>> 
>>> Office of High Performance Computing and Communications
>>> 
>>> National Library of Medicine
>>> 
>>> blowekamp at mail.nih.gov
>>> 
>>> 
> 
> _______________________________________________
> Powered by www.kitware.com
> 
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
> 
> Kitware offers ITK Training Courses, for more information visit:
> http://kitware.com/products/protraining.html
> 
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
> 
> Follow this link to subscribe/unsubscribe:
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========================================================
Bradley Lowekamp  
Lockheed Martin Contractor for
Office of High Performance Computing and Communications
National Library of Medicine 
blowekamp at mail.nih.gov


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