On 11.03.2013 15:50, Federico Milano wrote:
> Hi. I'm using the ProjectTemplate application to load a MRI DICOM series
> representing a volume in the Data Manager. The problem is that each
> image is loaded as a different Data Node, and not as a single volumetric
> image (this also happens in the workbench application). On the other
> hand, if I load it in the MITK 3M3 Data Manager, the series is
> recognized as a volume and loaded as a single data node. I know that
> MITK 3M3 is closed source and developed by a private company, but do you
> have any clue if there is some difference in the way DICOM files are
> treated? I'm working in research and I would really need to load these
> images as a volume.
Dear Federico,
I just had a look at the images you provided. Thanks for loading them up.
Other than "2D DICOM viewers", MITK always interprets DICOM images as
images in 3D space. The loader tries to group slices by similar tags and
sorts them spatially, taking into account the tags
0020,0032 ImagePositionPatient
0020,0037 ImageOrientationPatient
I tried plotting the positions and orientations of your images and they
look something like (ascii art)
------------------------
------------------------
------------------------
------------------------
------------------------
From what I understood, the shift parallel to your plane orientation is
happening in two dimensions, so we don't have a situation as in gantry
tilt images.
MITK attempts quite some sorting but ends up with loading each image
individually, because we cannot group them into 3D volumes.
Two questions:
- how did you get these images? They look processed. Any chance some
step in your pipeline modified plane positions?
- did you succeed to load these images "as a volume" with any other
kind of software?
Probably a better loader for your images could be implemented in MITK,
but currently there is no effort to do so. If you want to add to such a
solution, I recommend reading mitkDicomSeriesReader.cpp (the tilt part)
and working on the tilt detection/correction code.
Kind regards
Daniel
--
Dr. Daniel Maleike Telefon: + 49 6221 647976 3
Mint Medical GmbH, Friedrich-Ebert-Straße 2, 69221 Dossenheim/Heidelberg
Geschäftsführer: Dr. Matthias Baumhauer
Registergericht Mannheim, HRB 709351
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