[Insight-users] Reading several slices into a volume - MetaImageIO

[Lucas Lorenzo]

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Hi all,

I have 136 slices stored in individual files. Each slice is 256 x 256.
I want to read them into a volume so I wrote the following meta header 
file (B0.mhd) and code:

	ObjectType = Image
	NDims = 3
	DimSize = 256 256 136
	ElementSpacing = 1 1 1
	Position = 0 0 0
	ElementByteOrderMSB = True
	ElementType = MET_USHORT
	HeaderSize = -1
	ElementDataFile = I.%03d 1 136 1


	#include <itkImage.h>
	#include <itkImageFileReader.h>

	int main()
	  {
	  // Declare the image type
  	 typedef itk::Image<unsigned short, 3> ImageType;

  	 // Declare a reader
  	 typedef itk::ImageFileReader< ImageType > VolumeReaderType;
  	 VolumeReaderType::Pointer reader = VolumeReaderType::New();

  	 // Set the name of the file to read
  	 reader->SetFileName( "B0.mhd" );

   	// Set the image into which the results should be stored
  	 ImageType::Pointer imOut;
  	 imOut = reader->GetOutput();

	  // See if the file can be read - "try" otherwise program will
	  //   mysteriously exit on failure in the Object factory
	  try
   	  {
  	     reader->Update();
  	   }
  	 catch(itk::ExceptionObject &e)
	    {
	      std::cout << "Problems reading file format" << std::endl;
  	     std::cerr << e << std::endl;
  	     return -1;
	    }

  	 return 1;
  	 }

And I have the problem that it reads the first file (I.001) but it 
doesn't read the rest:

	Using string 'I.%03d' with values 1 to 136 stepping 1
   	file = _I.001_
   	file = _I.002_
	MetaImage: M_ReadElements: data not read completely
   	 ideal = 131072 : actual = 0
					*
					*
					*
  	 file = _I.136_
	MetaImage: M_ReadElements: data not read completely
   	 ideal = 131072 : actual = 0

Could someone please help me to figure out what's wrong?
Thanks

Lucas Lorenzo

University of Utah
Nora Eccles Harrison CardioVascular Research and Training Institute
Fellows Room
95 South 2000 East
Salt Lake City, UT 84112-5000

e-mail:  lucas at cvrti . utah . edu
telephone: 801-587-9536
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	charset=US-ASCII

Hi all,


I have 136 slices stored in individual files. Each slice is 256 x 256.

I want to read them into a volume so I wrote the following meta header
file (B0.mhd) and code:


<italic>	ObjectType = Image

	NDims = 3

	DimSize = 256 256 136 

	ElementSpacing = 1 1 1

	Position = 0 0 0

	ElementByteOrderMSB = True

	ElementType = MET_USHORT

	HeaderSize = -1

	ElementDataFile = I.%03d 1 136 1



	#include <<itkImage.h>

	#include <<itkImageFileReader.h>


	int main()

	  {

	  // Declare the image type

 	 typedef itk::Image<<unsigned short, 3> ImageType;

  

 	 // Declare a reader

 	 typedef itk::ImageFileReader<< ImageType > VolumeReaderType;

 	 VolumeReaderType::Pointer reader = VolumeReaderType::New();


 	 // Set the name of the file to read

 	 reader->SetFileName( "B0.mhd" );


  	// Set the image into which the results should be stored

 	 ImageType::Pointer imOut;

 	 imOut = reader->GetOutput();

 

	  // See if the file can be read - "try" otherwise program will 

	  //   mysteriously exit on failure in the Object factory

	  try

  	  {

 	     reader->Update();

 	   }

 	 catch(itk::ExceptionObject &e)

	    {

	      std::cout <<<< "Problems reading file format" <<<< std::endl;

 	     std::cerr <<<< e <<<< std::endl; 

 	     return -1;

	    }


 	 return 1;

 	 }</italic>


And I have the problem that it reads the first file (I.001) but it
doesn't read the rest:


	<italic>Using string 'I.%03d' with values 1 to 136 stepping 1

  	file = _I.001_

  	file = _I.002_

	MetaImage: M_ReadElements: data not read completely

  	 ideal = 131072 : actual = 0

					*

					*

					*

 	 file = _I.136_

	MetaImage: M_ReadElements: data not read completely

  	 ideal = 131072 : actual = 0</italic>


Could someone please help me to figure out what's wrong?

Thanks


Lucas Lorenzo


University of Utah

Nora Eccles Harrison CardioVascular Research and Training Institute

Fellows Room

95 South 2000 East

Salt Lake City, UT 84112-5000


e-mail:  lucas at cvrti . utah . edu

telephone: 801-587-9536
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