[Insight-users] MetaIO, large volume (>2GB) and HeaderSize

[Bradley Lowekamp]

Hello Simon,

If you need a quick way to mung an image file SimpleITK is very good for this purpose. In Python it'd just be:

import SimpleITK as sitk
img = sitk.ReadImage("myfile.mhd")
sitk.WriteImage(img[:,:,-1], "outfile.mhd")

Brad

On Apr 18, 2013, at 11:16 AM, Simon Rit <simon.rit at creatis.insa-lyon.fr> wrote:

> It is a lot handier to directly modify the header file rather than
> adding an optional extract filter in my software with the gui (here,
> http://vv.creatis.insa-lyon.fr/). And it does not change the fact that
> this is a bug or a limitation of MetaIO...
> 
> On Thu, Apr 18, 2013 at 5:07 PM, Matt McCormick
> <matt.mccormick at kitware.com> wrote:
>> Hi Simon,
>> 
>> Hacking the .mhd file may not be a good way to select a slice.
>> Instead, try something like
>> http://www.itk.org/Doxygen/html/classitk_1_1ExtractImageFilter.html.
>> 
>> MetaIO is maintained alongside ITK/VTK.
>> 
>> HTH,
>> Matt
>> 
>> On Thu, Apr 18, 2013 at 2:55 PM, Simon Rit
>> <simon.rit at creatis.insa-lyon.fr> wrote:
>>> Hi,
>>> I'm using the mhd format to read one slice of a 4GB raw volume. At
>>> some point, I wanted to display the last slice of my volume so I put
>>> "HeaderSize = -1" at the beginning of my mhd file which was pointing
>>> to the raw data. Doing the same with the exact position, i.e.,
>>> "HeaderSize = 4278190080" failed... I found out that m_HeaderSize is
>>> an int in metaImage.cxx so the value is read as negative.
>>> Is this a bug or a known limitation? In the second case, any
>>> alternative suggestion? In the first case, where should I report this
>>> since it's a third party library?
>>> Thanks,
>>> Simon
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> _____________________________________
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> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
> 
> Please keep messages on-topic and check the ITK FAQ at:
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