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Author: Grand Roman Joldes
E-mail : grand.joldes@uwa.edu.au

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Automatic AAA wall extraction instructions

--- Setup:

Copy RegisterMRI2CT.bat and RegisterMRI2CT.py in the Segmentation_MRI directory

You should have the following files available: 
MRI_AAA_label.nrrd, .\Segmentation_CT\CT_AAA_label.nrrd, MRI_cropped.nrrd

Change the path to Slicer.exe in RegisterMRI2CT.bat according to your computer's configuration.

--- Running:
 
Run RegisterMRI2CT.bat (double click or run it from a command window). 
It must be run from the Segmentation_MRI directory !

--- Output

registerMRI2CT.h5 and MRI_aligned_to_CT.nrrd

--- Debug

You can SET Debug=1 in RegisterMRI2CT.bat. This will prevent Slicer from closing. 
You can then open the Python Interactor (View->Python Interactor or Ctrl+3) and
check the output messages.

