Re: [vmtk-users] centerlines question

[Luca A. <an...@ma...>]

Hey Joong-Ho,
  thanks for reporting. I noticed this a few days ago.
Indeed this is a issue with ITK. ITK developers are used to derive  
classes and build against the built version of ITK.
In the build tree, those included files are in fact in Utilities/ 
itkExtHdrs. However, during make install the itkExtHdrs directory  
disappears, and all files are placed in /usr/local/include/ 
InsightToolkit/Utilities.
Therefore, the quick workaround is to build against the built ITK  
version.

I'll file a bug report to the ITK guys, this thing should be fixed.

Thanks a lot and let me know if you need anything.


Luca


PS: by the way, which compiler are you using under Windows?


--
Luca Antiga, PhD
Biomedical Technologies Laboratory,
Bioengineering Department,
Mario Negri Institute
email: an...@ma...
web: http://villacamozzi.marionegri.it/~luca
mail: Villa Camozzi, 24020, Ranica (BG), Italy
phone: +39 035 4535-381



On Jan 25, 2007, at 10:36 PM, Joong-Ho Won wrote:

> Hi Luca,
>
> It worked very well, and the results are exactly what I wanted. I  
> really appreciate your help.
>
> BTW, I had some minor troubles in compiling the source. Some ITK  
> headers (itkAnalyzeImageIO.h, itkGE5ImageIO.h) look for headers in  
> itkExtHdrs subdirectory, but they are in fact in Utilities  
> subdirectory. I think this is the problem of ITK, not VMTK. But I  
> just wanted to let you know. I use ITK3.0 on Windows XP.
>
> Thanks again,
>
>    Joong-Ho.
>
>
> Luca Antiga wrote:
>> Hi Joong-Ho,  last night I coded in a class that does what you  
>> were looking for.
>> I attach the new vmtk code.
>> Since there has been a change in this version on how python  
>> modules are organized (it's much more pythonic now), you're  
>> required to clean your /usr/local/lib/vmtk directory before  
>> installing this version. This has just to be done the first time,  
>> of course.
>> The class that lumps branches into single centerline tracts is  
>> called vmtkcenterlinemerge. You have to provide split centerlines  
>> and it will generate a line for each branch (bifurcation tracts  
>> are excluded), preserving group ids:
>> vmtkcenterlinemerge -ifile foo_tracts.vtp -groupidsarray GroupIds - 
>> blankingarray Blanking -radiusarray MaximumInscribedSphereRadius - 
>> length 0.01 -ofile foo_merged.vtp
>> The -length option is relative to the length of the step with  
>> which you resample centerlines (resampling is used to generate  
>> coincident points on the different cells of a branch).
>> Then you can display centerlines this way
>> vmtkcenterlineviewer -ifile foo_merged.vtp -cellarray GroupIds
>> to know what groupid is what.
>> Let me know if this works for you
>> Luca