[Insight-users] Support of IPP and IOP in ImageViewer.

[Luis Ibanez]

Hi Levy,

Thanks for the additional information.

Since you report that Slicer coordinates are correct
and the ImageViewer are not. It is reasonable to
assume that your images have a non-identity direction
(image orientation).

If you want to modify the code of the ImageViewer,
you should look for the Point clicking code in


    InsightApplications/Auxiliary/FltkImageViewer/
          SliceView.h

in particular at lines 879-880.


You may want to convert these values by using the
method


     TransformIndexToPhysicalPoint


You should also replace itk::Image with itk::OrientedImage
in the code of


     InsightApplications/ImageViewer



    Regards,


       Luis


----------------
yoav levy wrote:
> Hi Luis,
> 
> Thanks!
> 
> Regarding your response:
> 
> 1. OK.
> 2. I am using GE's MRI to read my landmark's coordinates.
> 3,5. The Slicer3's coordinates-report is equivalent to the measurements 
> on the MRI. In contrast, The ImageViewer's report is different.
> 
> 
> Thanks, Yoav
> 
> On Mon, Jul 14, 2008 at 12:28 AM, Luis Ibanez <luis.ibanez at kitware.com 
> <mailto:luis.ibanez at kitware.com>> wrote:
> 
> 
> 
>     Hi Yoav,
> 
> 
>     1) Please us the example application:
> 
>          Insight/Examples/IO/DicomSeriesReadImageWrite2.cxx
> 
>       to convert your DICOM series to MetaImage.
> 
> 
> 
>     2) What tool are you using for checking the coordinates ?
> 
>          ParaView ?
>          Slicer ?
> 
> 
>     3) We cannot confirm much about the coordinates differences
>       that you are reporting, unless we have access to the
>       DICOM series that you are using. Can you make it available ?
> 
> 
>     4) ITK is Open Source  :-)
> 
>       You will find the most recent version of
>       the ImageViewer under:
> 
>          InsightApplications/ImageViewer
> 
> 
>     5) Before concluding that the ImageViewer is using an
>       incorrect coordinate system, you should load your
>       DICOM dataset *and* the converted MHA image in an
>       application that manages orientation correctly.
> 
>       The best application in this regard is Slicer
> 
>              http://www.slicer.org/
> 
>       Slicer will display correctly an image, by taking
>       into account, both its origin, spacing and orientation.
> 
> 
>     Please upload you DICOM image into Slicer and let us
>     know what you find,
> 
> 
>        Thanks
> 
> 
>           Luis
> 
> 
> 
>     ----------------------
>     yoav levy wrote:
> 
> 
> 
>         I am using the ImageViewer to explore 3D MRI images. The Images
>         are taken from the MR in DICOM format and converted to ".mah"
>         using ConvertBetweenFileFormats application.
>         My problem: The coordinates reported by the ImageViewer do not
>         match the coordinates reported by the MR. I found old massages,
>         claiming that the ImageViewer ignores several tags.
>         (http://www.itk.org/pipermail/insight-users/2006-April/017407.html).
>         1. Can you confirm my analysis (that the coordinates difference
>         stems from ignoring tags such as IPP and IOP) ?
>         2. Can I find an improved version of ImageViewer somewere?
>         3. Suppose there is no solution to the ImageViewer problem, I
>         should develop a workaround. In my application I  import
>         landmarks generated in another proprietary application. How can
>         I transform those landmarks to the "wrong" coordinates presented
>         by the ImageViewer?
> 
> 
>         Thanks,
>         Yoav
> 
> 
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