Hi Richard,
indeed there is a way. The initialization phase in vmtklevelsetsegmentation is
performed by vmtkimageinitialization,
which accepts parameters at the command line and whose output can be piped to
vmtklevelsetsegmentation (in which
case the latter will use the initialized level sets generated by the former).
vmtklevelsetsegmentation can also run
non-interactively by specifying iterations and evolution parameters at the
command line. Here's a sample pipe:
vmtkimageinitialization -ifile your_image_file.mha -interactive 0 -method
collidingfronts -lowerthreshold 200.0 -sourcepoints 54 25 12 -targetpoints 89
60 24 --pipe vmtklevelsetsegmentation -ifile you_image_file.mha -iterations 500
-advection 1.0 -curvature 0.1 -propagation 0.0 -ofile level_set_file.mha
One caveat: sourcepoints and targetpoints are in IJK coordinates (i.e. voxel
indices), not physical coordinates.
Hope this helps,
Luca
On Jun 18, 2013, at 10:51 PM, Richard Abrich wrote:
> Hello,
>
> I'm interested in calling vmtkLevelSetSegmentation from a script. I want to
> run colliding fronts with arbitrary thresholds and start/end position vectors
> for the initial segmentation, and then run the level set segmentation with
> arbitrary parameters.
>
> Unfortunately, there doesn't seem to be any way to specify these parameters
> from the command line. What might be the easiest way to accomplish this?
>
> Thanks,
> Richard
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