I have been using centerline and network extraction in VMTK through the Python interface. For centerlines, I have been using the pickpoint GUI to set the start and endpoints for vessels, and I want to switch to specifying these points on the command line. I have tried passing in coordinates (in voxels and millimeters) to points in the vessel via the “pointlist” option, but the centerline fails to generate. Is there another option I should be using, or is there a specific format that the seeds need to be in?
If the seeds are required to be on the vessel surface and not just anywhere in/on the vessel, is there a way to get the closest point to the specified seed on the surface?
Thank you in advance!