[Insight-users] SimpleITK: GetImageFromArray not working for images larger than 2^32 bytes

[Bradley Lowekamp]

Hello,

I was able to execute the following on my RH6 x64 system from a locally built SimpleITK:

img = sitk.Image([2048]*3,sitk.sitkUInt16)
a = sitk.GetArrayFromImage(img)

Are you able to do a similar test?

There are two things that I am suspicious of the first is the type of image you have. Please look at the following:

print img.GetPixelIDTypeAsString()
print img

This should give you the details of the run-time image information.

If happen to have a RGB image loaded as a Vector image, that is a bit different that just a scalar UInt16.

The second possible issue is that there is a binary incompatibility issue with your OS and the version you download. So what are the specifics of the OS you are using and the python version?

Brad

On Nov 8, 2013, at 8:44 AM, Bradley Lowekamp <brad at lowekamp.net> wrote:

> Do you get the same error with 0.7?
> 
> http://sourceforge.net/projects/simpleitk/files/SimpleITK/0.7.0/Python/
> 
> Brad
> 
> On Nov 8, 2013, at 8:34 AM, Marvin Albert <marvin.albert at gmail.com> wrote:
> 
>> Hi!
>> 
>> is this the right place for a SimpleITK problem?
>> 
>> I'm using SimpleITK for carrying out transformations on large images within a python environment.
>> 
>> My problem is that when I want to transform python arrays bigger than 2^32 bytes (for example size (1400,1600,2000), uint16) into SimpleITK images, it will complain saying
>> 
>> SimpleITK-0.6.1-py2.6-linux-x86_64.egg_FILES/SimpleITK.pyc in GetImageFromArray(arr, isVector)
>>    298       img = Image( z.shape[::-1], id )
>>    299 
>> --> 300     _SimpleITK._SetImageFromArray( z.tostring(), img )
>>    301 
>>    302     return img
>> 
>> RuntimeError: Size mismatch of image and Buffer.
>> 
>> As you can see, I'm using the 64Bit binary of SimpleITK under linux and there shouldn't be a problem right?
>> 
>> Thanks a lot in advance!
>> Best,
>> Marvin
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