Hi Luca,
I'm trying to use vmtksurfacetransformtoras to convert a surface generated via
vmtk in xyz image space to RAS space. The script I'm using is this:
vmtkimagereader -ifile /path/image_volume.dcm --pipe vmtksurfacetransformtoras
-ifile /path/surface.vtp -ofile /path/transformedtoras_surface.vtp
from the vmtk terminal output I see (among other things):
Output vmtkimagereader members:
Id = 0
Image = vtkImageData
RasToIjkMatrixCoefficients = [-3.8400001464843805, 7.875971109312715e-10,
0.0, 348.0000131671146, -7.875971109312715e-10, -3.8400001464843805, -0.0,
526.7215631329591, 0.0, -0.0, 2.0, 111.08353424072266, -0.0, 0.0, -0.0, 1.0]
XyzToRasMatrixCoefficients = [-1.0, -2.0510340648094427e-10, 0.0,
181.25000002813343, 2.0510340648094427e-10, -1.0, 0.0, 274.33413694430317, 0.0,
0.0, 1.0, 0.0, 0.0, 0.0, 0.0, 1.0]
.
.
.
Input vmtksurfacetransformtoras members:
Id = 0
Disabled = 0
Surface = None
SurfaceInputFileName =
/var/tmp/alhoppe/BIOMOST/Fe_MRI_Study/CFD/2319/RAS_coord_model/2319_MCA_Clipped_triangle_ex.vtp
XyzToRasMatrixCoefficients = [-1.0, -2.0510340648094427e-10, 0.0,
181.25000002813343, 2.0510340648094427e-10, -1.0, 0.0, 274.33413694430317, 0.0,
0.0, 1.0, 0.0, 0.0, 0.0, 0.0, 1.0]
SurfaceOutputFileName =
/var/tmp/alhoppe/BIOMOST/Fe_MRI_Study/CFD/2319/RAS_coord_model/2319_MCA_Clipped_triangle_ex_transformedtoras.vtp
>From this output I see that the proper xyztoras matrix coefficients (identical
>to the xyztoras matrix coeficients from vmtkimagereader) are being read in by
>vmtksurfacetransformtoras. However, when I load the
>transformedtoras_surface.vtp into 3DSlicer, which I know uses the RAS
>coordinate system, the transformedtoras_surface.vtp is misaligned from the
>image_volume.dcm. What am I missing in my script?
Thanks for everything!
Anna Hoppe
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