Re: [vmtk-users] vmtkcenterlines never return

[Luca A. <luc...@or...>]

Hi Lingfeng,
 for those cases you might want to add a subdivision step right before centerlines (note that this might lead to a large surface and longer computation times):

vmtksurfaceconnectivity -ifile airway.vtp --pipe vmtksurfacesmoothing -passband 0.01 -iterations 30 --pipe vmtksurfacesubdivision -method butterfly --pipe vmtkcenterlines -ofile airway_centerlines.vtp

There are a few degenerate cases that still lead to infinite loops in certain occasions. When I get to it, this issue will likely be solved at its root.
I'll keep you posted on this one.

Thanks a lot for your input.


Luca



On Dec 23, 2011, at 11:04 AM, Lingfeng Zhuang wrote:

> Thank you Luca,
> 
> It is much better than before. In most cases, it can produce
> centerline. However, if I select all branch distal points, it would
> not return.
> 
> Does vmtk support timeout? If the time took for calculating centerline
> between two points is longer than expected, vmtk will ignore the two
> points and continue to calculate others.
> 
> Best regards,
> 
> Jerry
> 
> On Fri, Dec 23, 2011 at 5:11 PM, Luca Antiga <luc...@or...> wrote:
>> Hi Linfeng,
>>  the surface probably leads to degenerate Voronoi polygons somewhere in the
>> smaller branches.
>> Try smoothing the surface first, using
>> vmtksurfacesmoothing -ifile airway.vtp -passband 0.01 -iterations 30 -ofile airway_smooth.vtp
>> 
>> maybe try with -passband 0.1 if the smoothing is too strong with 0.01.
>> 
>> I also suggest to get rid of the disconnected segments using vmtksurfaceconnectivity.
>> 
>> You can do everything in a single pipe
>> 
>> vmtksurfaceconnectivity -ifile airway.vtp --pipe vmtksurfacesmoothing -passband 0.01 -iterations 30 --pipe vmtkcenterlines -ofile airway_centerlines.vtp
>> 
>> Let me know if this helps.
>> 
>> 
>> Luca
>> 
>> 
>> On Dec 22, 2011, at 4:29 PM, Lingfeng Zhuang wrote:
>> 
>>> Hi
>>> 
>>> I am trying to extract centerline for the polydata attached. But after
>>> picking start point and end points, the program did not return in two
>>> hours. Python took 100% CPU usage in this period.
>>> 
>>> The command used is vmtkcenterlines -ifile airway.vtp -ofile foo_centerlines.vtp
>>> 
>>> Please help.
>>> 
>>> Best regards,
>>> 
>>> Jerry
>>> <airway.vtp><endpoints.JPG><startpoints.JPG>------------------------------------------------------------------------------
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> 
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