[Insight-users] Reading the Visible Human cryo data

[Luis Ibanez]

Hi Brian,


Visible Human (VH) cryo data is ordered in a different
format from what you need for an image of RGB.

The VH data slices are ordered as :;


    RRRRR....... GGGGGGGGGGG....... BBBBBBBBB.....

instead of

    RGBRGBRGB.....

You will find VH data converted to Image< RGB > friendly
format in our FTP directory. Please follow the link to
"Data" in http://www.itk.org

There is also a Python script around that we used for
converting the original format in to the RGBRGBRGB
format.

You don't want to use RAW for this.  It is much safer
to use MetaImage reader. You simply have to create
a MetaImage header for your raw files.  Again, you will
find instruction on how to create this header in the
"Data" page at www.itk.org.

---

Please let us know if you would like to get the Python
script for reordering the data.


   Regards,



      Luis




------------------
Brian Rowe wrote:

> I am trying to read a slice from the male cryo data
> set, and I am getting an exception which has this
> description:
> 
> Couldn't convert pixel type: 
>     N3itk8RGBPixelIhEE
> to one of: 
>     h
>     c
>     t
>     s
>     j
>     i
>     m
>     l
>     f
>     d
> 
> I am using this code to read in the file:
> 
> typedef itk::RGBPixel<unsigned char> PixelType;
> const unsigned int Dimension = 2;
> typedef itk::Image< PixelType, Dimension > ImageType; 
> typedef itk::ImageFileReader< ImageType > FileType;
> typedef itk::RawImageIO<PixelType, Dimension>
> RawReaderType;
> 
> FileType::Pointer ImageFile = FileType::New();
> RawReaderType::Pointer RawReader =
> RawReaderType::New();
> 
> ImageFile->SetImageIO( RawReader );
> ImageFile->SetFileName( filename );
> RawReader->SetFileDimensionality( Dimension );
> 
> try{ ImageFile->Update(); } catch { ... }
> 
> I've looked at the file that throws the exception, but
> it's not immediately clear to me what the problem is.
> 
> Thanks for your time
> 
> Brian
> 
> 
> =====
> 1.79 x 10^12 furlongs per fortnight -- it's not just a good idea, it's the law!
> 
> 
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