[vtk-developers] vtkNIFTIImageReader coordinates

[padraig]

I have noticed some inconsistencies in how NIFTI images are handled in 
VTK, ITK, and NiBabel. ITK and NiBabel are in agreement with each other 
and differ with VTK on the position of the volume. The VTK output for a 
file is below.

vtkNIFTIImageReader (0x1de67d0)
   Debug: Off
   Modified Time: 91
   Reference Count: 2
   Registered Events: (none)
   Executive: 0x1de7720
   ErrorCode: Success
   Information: 0x1de6ad0
   AbortExecute: Off
   Progress: 1
   Progress Text: (None)
   FileName: /home/padraig/Desktop/59674/Seeding/I0000003_59674_sn.nii
   FileNames: 0
   FilePrefix: (none)
   FilePattern: %s.%d
   FileNameSliceOffset: 0
   FileNameSliceSpacing: 1
   DataScalarType: unsigned char
   NumberOfScalarComponents: 1
   File Dimensionality: 3
   File Lower Left: On
   Swap Bytes: Off
   DataIncrements: (1, 1)
   DataExtent: (0, 223, 0, 152, 0, 51)
   DataSpacing: (0.9195, 1.40018, 2.89048)
   DataOrigin: (0, 0, 0)
   HeaderSize: 352
   Internal File Name: (none)
   TimeAsVector: Off
   TimeDimension: 1
   TimeSpacing: 1
   RescaleSlope: 1
   RescaleIntercept: 0
   QFac: -1
   QFormMatrix: -1 0 0 102.536 0 -1 0 106.413 0 0 1 -117.265 0 0 0 1
   SFormMatrix: -1 0 -0 102.536 0 -1 -0 106.413 0 0 1 -117.265 0 0 0 1
   NIFTIHeader:
   PlanarRGB: Off

the qform given by nibabel is

 >>> ni_ob.get_qform()
array([[  -0.91949999,    0.        ,    0.        , 102.53600311],
        [   0.        ,   -1.40017998,    0.        , 106.41300201],
        [   0.        ,    0.        ,    2.89048004, 30.14909935],
        [   0.        ,    0.        ,    0.        ,    1. ]])


ITK has the origin at

[-102.536, -106.413, 30.1491]


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