[Insight-users] save .mhd file in .vtk format Keeping RGB values

[alex Dowson]

Hi

You donot need ImageSeriesRead.  it used for only when you have image in form of slices.  

Is it gives any error ? if not then vtk file will generated in your project folder.

alex






From: shirani kannangara 
Sent: Wednesday, September 19, 2012 1:25 PM
To: alexdowson at hotmail.com 
Subject: Re: save .mhd file in .vtk format Keeping RGB values

Dear Alex  
I made it like this.
reader->SetFileName( "D:\\To_SMK\\VHPAbdomen.mhd" );
Now the command window show  nothing other than the .exe path.
(D:\rgbabdomen\Debug>)
Do I have to use  ImageSeriesRead WRite class?It is a suggestion only.
Bye


On Wed, Sep 19, 2012 at 12:58 PM, alex Dowson <alexdowson at hotmail.com> wrote:



  Hi

  Make one change

  reader->SetFileName( "D:\\To_SMK\\VHPAbdomen%o3d.mhd" );
  to 
  reader->SetFileName( "D:\\To_SMK\\VHPAbdomen.mhd" ); <= this is your input image name


  Let me know the result then




  From: shirani kannangara 
  Sent: Wednesday, September 19, 2012 12:53 PM
  To: alex Dowson 
  Cc: insight-users at itk.org 
  Subject: Re: save .mhd file in .vtk format Keeping RGB values

  Dear Aloex

  Thanis a lot for your help. I prepared my codes as you direct me.I could build the programe with zero errors(but one warning).The output displayed in the comand window as follows.My codes are also given bellow.Can you help to correct this problem.


  D:\rgbabdomen\Debug>RGBPixel.exe
  Error reading the series

  itk::ImageFileReaderException (01ACE970)
  Location: "void __thiscall itk::ImageFileReader<class itk::Image<class itk::RGBP
  ixel<unsigned char>,3>,class itk::DefaultConvertPixelTraits<class itk::RGBPixel<
  unsigned char> > >::GenerateOutputInformation(void)"
  File: d:\new2\insighttoolkit-4.2.0\insighttoolkit-4.2.0\modules\io\imagebase\inc
  lude\itkImageFileReader.hxx
  Line: 143
  Description:  Could not create IO object for file D:\To_SMK\VHPAbdomen%o3d.mhd
  The file doesn't exist.
  Filename = D:\To_SMK\VHPAbdomen%o3d.mhd

  #include "itkImage.h"
  #include "itkRGBPixel.h"
  #include "itkImageFileReader.h"
  #include "itkImageFileWriter.h"
  #include <string>
  using namespace std;


  // Software Guide : EndCodeSnippet

  int main(  int argc,  char argv[])
  { 
  typedef unsigned char                       PixelType;
  const unsigned int   Dimension = 3;

  typedef itk::RGBPixel<PixelType>           RGBPixelType;


  typedef itk::Image< RGBPixelType, Dimension>  ImageType;

  typedef itk::ImageFileReader<ImageType >   ReaderType;
  typedef itk::ImageFileWriter< ImageType >  WriterType;


  ReaderType::Pointer reader = ReaderType::New();
  reader->SetFileName( "D:\\To_SMK\\VHPAbdomen%o3d.mhd" );



  typedef itk::ImageFileWriter< ImageType > WriterType;
  WriterType::Pointer writer = WriterType::New();
  writer->SetInput( reader->GetOutput() );
  writer->SetFileName( "output.vtk");


  try
  {
      writer->Update();
  }
  catch( itk::ExceptionObject & excp )
  {
      std::cerr << "Error reading the series " << std::endl;
      std::cerr << excp << std::endl;
      return EXIT_FAILURE;
      }

  return 0;
  }




  regards
  Shirani











  On Wed, Sep 19, 2012 at 11:03 AM, alex Dowson <alexdowson at hotmail.com> wrote:


    Then this is what you want

    #include "itkImage.h"
    #include "itkRGBPixel.h"
    #include "itkImageFileReader.h"
    #include "itkImageFileWriter.h"




    typedef unsigned char                       PixelType;
    const unsigned int   Dimension = 3;

    typedef itk::RGBPixel<PixelType>           RGBPixelType;


    typedef itk::Image< RGBPixelType, Dimension>  ImageType;

    typedef itk::ImageFileReader<ImageType >   ReaderType;
    typedef itk::ImageFileWriter< ImageType >  WriterType;


    ReaderType::Pointer reader = ReaderType::New();
    reader->SetFileName( "D:\\To_SMK\\VHPAbdomen%03d.mhd" );






    typedef itk::ImageFileWriter< ImageType, ImageType > WriterType;
    WriterType::Pointer writer = WriterType::New();
    writer->SetInput( reader->GetOutput() );
    writer->SetFileName( "output.vtk");


    try
    { 
        writer->Update();
    }
    catch( itk::ExceptionObject & excp )
    {
        std::cerr << "Error reading the series " << std::endl;
        std::cerr << excp << std::endl;
    }





     

    From: shirani kannangara 
    Sent: Wednesday, September 19, 2012 11:00 AM
    To: alexdowson at hotmail.com 
    Cc: insight-users at itk.org 
    Subject: save .mhd file in .vtk format Keeping RGB values

    Date: Tue, 18 Sep 2012 16:14:44 +0530
    From: alex Dowson <alexdowson at hotmail.com>
    Subject: Re: [Insight-users] (no subject)
    To: "shirani kannangara" <mangalika673 at gmail.com>
    Cc: itk <Insight-users at itk.org>
    Message-ID: <SNT138-ds207ADF7393F47F289A3B7BD1940 at phx.gbl>
    Content-Type: text/plain; charset="iso-8859-1"
    Dear Alex


    Thanks for you reply.First I would like to answer your questions.

    This is what you asked from me.
    Hi


    1) I mean to say where is files from a_vm1455.raw to a_vm1905.raw ?  Is it same directory where you load VHPabdomen.mhd ?
    2) Your input image VHPabdomen.mhd  is color or gray scale ?
    3) After loading VHPabdomen.mhd do you want to produce slices or want to do any conversion ?

    Your code is not complete . If you can tell exactly what you want to do then we can help.


    1  Files a_vm1455.raw to a_vm1905.raw is the same directory (ie   VHPabdomen.mhd)
    2 Human Visible Dataset (ie VHPabdomen.mhd) is colour scale
    3 My ultimate gall is to save this .mhd file in .vtk format keeping RGB values .


    If you can direct me I can write codes again for that conversion.
    regards
    Shirani

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