Re: [vmtk-users] Problem with VMTKcenterlinegeometry

[Arjan G. <aj...@gm...>]

Hi Manasi,

The not-so-elegant solution to your problem may be here:
http://sourceforge.net/mailarchive/message.php?msg_id=28032510

Open the file .\vmtk 0.9.0\lib\vmtk\vmtk\vmtkcenterlinegeometry.py in a
text editor and add the following lines near the end of the file:

centerlineGeometry.SetLengthArrayName('Length')
centerlineGeometry.SetTortuosityArrayName('Tortuosity')

Run the following in PypePad to get the desired output:

vmtkcenterlinegeometry -ifile cl.vtp -smoothing 1 -iterations 10
-outputsmoothed 1 -ofile clgm.tec

Notice that you should leave out of your script "-lengtharray Length"
and "-tortuosityarray
Tortuosity",because those array names are now hard-coded. Otherwise, you
will receive again the error message: "vmtkcenterlinegeometry error:
unknown option -lengtharray"

Optionally, you could leave out "-curvaturearray Curvature", because the
default value is 'Curvature'.* *And you could leave out "-i
Centerlines", because
you already specify the centerline with "-ifile cl.vtp".

Hope this helps,

Arjan

On Thu, Apr 26, 2012 at 3:04 PM, Ramachandran, Manasi <
man...@ui...> wrote:

>  Hi,
>
>
>
> I am using VMTK0.9 on windows 7 (64 bit). I have some problem using
> vmtkcenterlinegeometry.
>
>
>    I ran this command:
> *vmtkcenterlinegeometry -i Centerlines -ifile
> stented_Series5_Negative20_levelsets_cl_CL.vtp -lengtharray Length
> -curvaturearray Curvature -tortuosityarray Tortuosity -smoothing 1
> -iterations 10 -outputsmoothed 1 -ofile
> stented_Series5_Negative20_levelsets_cl_CLGM.tec*
>
> And it will not detect most parameters. Here is the message I get:
>
> *Creating vmtkCenterlineGeometry instance.**
> Automatic piping vmtkcenterlinegeometry**
> Parsing options vmtkcenterlinegeometry**
> vmtkcenterlinegeometry error: unknown option -lengtharray**
> vmtkcenterlinegeometry : compute the local geometry of centerlines in**
>  terms of curvature and torsion**
>   Input arguments:**
>    -id Id (str,1); default=0: script id**
>    -handle Self (self,1): handle to self**
>    -disabled Disabled (bool,1); default=0: disable execution and**
>      piping**
>    -i Centerlines (vtkPolyData,1): the input centerlines**
>    -ifile CenterlinesInputFileName (str,1): filename for the default**
>      Centerlines reader**
>    -curvaturearray CurvatureArrayName (str,1); default=Curvature: name**
>      of the array where curvature values have to be stored**
>    -torsionarray TorsionArrayName (str,1); default=Torsion: name of**
>      the array where torsion values have to be stored**
>    -frenettangentarray FrenetTangentArrayName (str,1);**
>      default=FrenetTangent: name of the array where tangent vectors of**
>      the Frenet reference system have to be stored**
>    -frenetnormalarray FrenetNormalArrayName (str,1);**
>      default=FrenetNormal: name of the array where normal vectors of**
>      the Frenet reference system have to be stored**
>    -frenetbinormalarray FrenetBinormalArrayName (str,1);**
>      default=FrenetBinormal: name of the array where binormal vectors**
>      of the Frenet reference system have to be stored**
>    -smoothing LineSmoothing (bool,1); default=0**
>    -outputsmoothed OutputSmoothedLines (bool,1); default=0**
>    -iterations NumberOfSmoothingIterations (int,1) >= 0; default=100**
>    -factor SmoothingFactor (float,1) >= 0.0; default=0.1**
>    -ofile CenterlinesOutputFileName (str,1): filename for the default**
>      Centerlines writer**
>   Output arguments:**
>    -id Id (str,1); default=0: script id**
>    -handle Self (self,1): handle to self**
>    -o Centerlines (vtkPolyData,1): the output centerlines**
>    -curvaturearray CurvatureArrayName (str,1); default=Curvature: name**
>      of the array where curvature values are stored**
>    -torsionarray TorsionArrayName (str,1); default=Torsion: name of**
>      the array where torsion values are stored.*
>
> And when I try running the basic command with only -ifile and -ofile, I
> get an empty .tec file. I dont know if it has anything to do with running
> VMTK on windows. I am able to run vmtkcenterlineattributes
> successfully. Please let me know if anyone else has had the same problem
> and how you tried to fix it.
>
> Thanks,
> Manasi
>
>
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