Does anyone have an example of using Slicer modules wrapped with nipype?
I am trying to use the ModelToLabelMap module with this python code.
from nipype.interfaces import slicer
volume = slicer.surface.ModelToLabelMap()
volume.inputs.surface="/Volumes/Samsung_T5/Meshing/VTAs/MNI_Atlas_Space/NP19001_1-2-3-4-_1.25_L_VTA_MNI_atlas.vtk"
volume.inputs.InputVolume="/Volumes/Samsung_T5/Meshing/MNI152_T1_1mm_mask.nii.gz"
volume.inputs.OutputVolume="/Volumes/Samsung_T5/Meshing/VTAs/MNI_Atlas_Space/NP19001_1-2-3-4-_1.25_L_VTA_MNI_atlas.nii.gz"
volume.run()
And this is the error I get.
Traceback (most recent call last):
File “/Volumes/Samsung_T5/Meshing/Code/vta_vtk_to_vol.py”, line 8, in
volume.run()
File “/Users/chantel/.conda/envs/NP_Code/lib/python3.6/site-packages/nipype/interfaces/base/core.py”, line 419, in run
runtime = self._run_interface(runtime)
File “/Users/chantel/.conda/envs/NP_Code/lib/python3.6/site-packages/nipype/interfaces/base/core.py”, line 803, in _run_interface
% (executable_name, runtime.hostname)
OSError: No command “ModelToLabelMap” found on host Chantels-Mac.local. Please check that the corresponding package is installed.
Process finished with exit code 1