Re: [vmtk-users] 2 questions on segmentation

2013-05-06 Thread Vikram Mehta
Hi Luca, Thanks alot, that seemed to do the trick. Cheers Vikram. On Mon, May 6, 2013 at 2:24 PM, Luca Antiga wrote: > Hi Vikram, > I'm suggesting to pipe the vmtksurfacetriangle script right after > vmtkmarchingcubes > > vmtkmarchingcubes -ifile some_file.vti --pipe vmtksurfacetriangle -of

Re: [vmtk-users] 2 questions on segmentation

2013-05-06 Thread Luca Antiga
Hi Vikram, I'm suggesting to pipe the vmtksurfacetriangle script right after vmtkmarchingcubes vmtkmarchingcubes -ifile some_file.vti --pipe vmtksurfacetriangle -ofile thesurface.vtp and see if this works. Luca On May 6, 2013, at 3:20 PM, Vikram Mehta wrote: > Hi Luca, > > Yes these bumps

Re: [vmtk-users] 2 questions on segmentation

2013-05-06 Thread Vikram Mehta
Hi Luca, Yes these bumps/holes occured when I tried a smoothing script straight after marching cubes. It occurs at 3-4 spots on the reconstruction. Are you suggesting increasing the number of surface triangles ? Best Vikram. On Mon, May 6, 2013 at 2:13 PM, Luca Antiga wrote: > Hi Virkam, >

Re: [vmtk-users] 2 questions on segmentation

2013-05-06 Thread Luca Antiga
Hi Virkam, you haven't provided a lot of info on this, but this looks like a VTK Marching Cubes issue that arises sometimes. Try to use vmtksurfacetriangle right after vmtkmarchingcubes (and before any other smoothing or other scripts). Best, Luca On May 6, 2013, at 3:09 PM, Vikram Mehta wrot

Re: [vmtk-users] 2 questions on segmentation

2013-05-02 Thread Arjan Geers
Hi Vikram, To smooth out bumps, you could also look into ReMESH ( http://remesh.sourceforge.net/index.html). It allows you to select triangles of the surface mesh and smooth or remove only those. It also has a smooth hole filling algorithm. Arjan On Thu, May 2, 2013 at 11:00 AM, Vikram Mehta w

Re: [vmtk-users] 2 questions on segmentation

2013-05-02 Thread Vikram Mehta
Thanks Luca, will look into your suggestions. While waiting for your replies, I found another way outside of VMTK to align my stl but the smoothing issue is still to be resolved. Thanks again, Vikram. On Wed, May 1, 2013 at 1:13 PM, Luca Antiga wrote: > Hello Vikram, > thanks for your patie

Re: [vmtk-users] 2 questions on segmentation

2013-05-01 Thread Luca Antiga
Hello Vikram, thanks for your patience. Pretty busy couple of weeks. On Apr 23, 2013, at 2:51 PM, Vikram Mehta wrote: > Dear users, > > I have a couple of questions and I was hoping to get some advice on this. > > 1) Is there a way of aligning one of the ends of the reconstructed geometry > w