[ITK-users] simpleitk + python + vector type in sitk.mirrorpad args?

[Robert.Atwood at diamond.ac.uk]

Hi,
I just can't get this to work, I've tried any permutation I can think of. 
I want to pad an array up to a calculated value on all dimensions. The calculation is easy to do in vectors with numpy , but whatever I try to do the mirrorpad function will not accept the data type. 


Fsize is the array size and padsize is the  desired size in all dimensions. The calculation produces initially a floating point number 
The line in comment # works, but I can't find a simple way to get the calculated output into a type that the function accepts. 
So my question :

  1. is there a more integrated  way to make the image fit the requirements of the FFT filter, because that's what all this is in aid of.
  2. if this is the best way to do it, how do I make the function accept the dimension vector??


Thanks! 

The error is as follows: 

_____________________________

Traceback (most recent call last):
  File "/home/kny48981/progs/segment_sitk/trysitkmask.py", line 92, in <module>
    padim=sitk.MirrorPad(medim,padextratup,padtoptup)
  File "/home/kny48981/.local/lib/python2.7/site-packages/SimpleITK/SimpleITK.py", line 35916, in MirrorPad
    return _SimpleITK.MirrorPad(*args, **kwargs)
TypeError: in method 'MirrorPad', argument 2 of type 'std::vector< unsigned int,std::allocator< unsigned int > > const &'

_____________________


Complete reproducer with dummy image: (full output below) 


reproducer.py 
>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>
import SimpleITK as sitk
import numpy as np



medim=sitk.Image(120,122,135,sitk.sitkFloat32)

fsize=np.array(medim.GetSize())
fctr=fsize/2.0

padsize=(256,256,256)

padextra=(((padsize-fsize)/2.0)).astype(np.int32)

print "fsize=",fsize
print "padsize=",padsize
print"padextra=", padextra
print type(padextra)
padfix = padsize - fsize - padextra - padextra
print "padfix",padfix
padtop=(padextra + padfix).astype(np.int32)


padextratup=tuple(padextra)
padtoptup=tuple(padtop)

#padextratup=(125,125,100)

print type(padtoptup)
print padtoptup
print type(padtoptup[0])
print type(padtoptup[1])
print type(padtoptup[2])

print type(padextratup)
print padextratup
print type(padextratup[0])
print type(padextratup[1])
print type(padextratup[2])


padim=sitk.MirrorPad(medim,padextratup,padtoptup)
<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
Output: 

python ./reproducer.py 
fsize= [120 122 135]
padsize= (256, 256, 256)
padextra= [68 67 60]
<type 'numpy.ndarray'>
padfix [0 0 1]
<type 'tuple'>
(68, 67, 61)
<type 'numpy.int32'>
<type 'numpy.int32'>
<type 'numpy.int32'>
<type 'tuple'>
(68, 67, 60)
<type 'numpy.int32'>
<type 'numpy.int32'>
<type 'numpy.int32'>
Traceback (most recent call last):
  File "./reproducer.py", line 42, in <module>
    padim=sitk.MirrorPad(medim,padextratup,padtoptup)
  File "/home/kny48981/.local/lib/python2.7/site-packages/SimpleITK/SimpleITK.py", line 35916, in MirrorPad
    return _SimpleITK.MirrorPad(*args, **kwargs)
TypeError: in method 'MirrorPad', argument 2 of type 'std::vector< unsigned int,std::allocator< unsigned int > > const &'
[kny48981 at i12-ws011 testseg_sitk]$
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