[ITK Community] [Insight-users] ITK and DICOM surfaces

Thu Dec 5 00:57:42 EST 2013

Hi Mathieu,

so it is implemented after all. Great! I was aware of that Summer of Code project, but I thought it was never actually realized and implemented, because I couldn't find any documentation about it and because Surface Storage supplement (132) is not linked to DICOM part 5. Maybe I just didn't Google hard enough. Anyway, this is great news and concludes my case. I'll get back with more questions if I run into insuperable obstacles.

Thanks!

/Harri

-----Original Message-----
From: Mathieu Malaterre [mailto:mathieu.malaterre at gmail.com] 
Sent: 4. Decemberta 2013 16:15
To: Pölönen Harri
Subject: Re: [Insight-users] ITK and DICOM surfaces

Hi,

  Surface Segmentation Objects have been added to GDCM in 2011:

http://gdcm.sourceforge.net/wiki/index.php/GDCM_Summer_of_Code_2011#Surface_Segmentation_Storage

  Simply use gdcm::SurfaceReader to read in Surface and or gdcm::SurfaceWriter to write them out:

http://gdcm.sourceforge.net/html/annotated.html

HTH

> From: Pölönen Harri
> Date: Wednesday, December 4, 2013
> Subject: [Insight-users] ITK and DICOM surfaces
> To: Matt McCormick <matt.mccormick at kitware.com>, Brian Helba 
> <brian.helba at kitware.com>
> Cc: "insight-users at itk.org" <insight-users at itk.org>
>
>
> Hi Matt and Biran,
>
> thanks for the info. It seems I have to make the IO routines for DICOM 
> surfaces to our software anyway, so I might as well implement them as 
> a DCMTK class into ITK. I haven't done anything that big before with 
> ITK (only small filters) so I will be needing some help from the 
> community then. And I'm not a programmer in the first place but just a researcher.
>
> At the moment our software uses GDCM and not DCMTK... will that be a 
> problem? I guess I can't use both at the same time, e.g. GDCM for 
> volume reading/writing and DCMTK for surface reading/writing? I 
> believe it's possible for be to re-build the software to use only 
> DCMTK if needed, although it needs some extra work.
>
> And one more thing: are there any reasons why I should prefer GDCM or 
> DCMTK over another? At least they both seem to be actively maintained and updated.
>
> Thanks!
>
> /Harri
>
>
> -----Original Message-----
> From: Matt McCormick [mailto:matt.mccormick at kitware.com]
> Sent: 3. Decemberta 2013 22:45
> To: Brian Helba
> Cc: Pölönen Harri; insight-users at itk.org
> Subject: Re: [Insight-users] [ITK Community] ITK and DICOM surfaces
>
> Hi Harri,
>
> As a follow-on, the current list of MeshIO formats can be found here:
>
>   http://www.itk.org/Doxygen/html/group__ITKIOMesh.html
>
> and there is not currently a DICOM format -- a DCMTK based class would 
> be a great contribution!
>
> Thanks,
> Matt
>
> On Wed, Nov 27, 2013 at 5:19 PM, Brian Helba <brian.helba at kitware.com>
> wrote:
>> To answer a small part of your question: DCMTK is also available as 
>> an alternative DICOM I/O library in ITK, and can be enabled by 
>> setting the CMake variable "Module_ITKIODCMTK" ON during configuration.
>>
>>
>> On Wed, Nov 27, 2013 at 3:20 AM, Pölönen Harri <Harri.Polonen at vtt.fi>
>> wrote:
>>>
>>> Hello all!
>>>
>>>
>>>
>>> I need to read and write surfaces from local DICOM files and convert 
>>> them to/from ITKmesh structures. The surfaces in DICOM files are not 
>>> defined as images but as meshes with nodes and polygons. I made some 
>>> research and understood that gdcm does not support DICOM surfaces 
>>> ("Surface Segmentation Storage SOP Class" defined in Supplement 132 
>>> since 2008).
>>>
>>>
>>>
>>> So does anyone here have experience on using DICOM surface storage 
>>> class with ITK? Most probably I have to build my own reader/writer 
>>> for it. Or is it possible to use some other DICOM reader as part of 
>>> ITK than gdcm?
>>>
>>>
>>>
>>> Many thanks!
>>>
>>>
>>>
>>> Harri,
>>>
>>> Finland
>>>
>>>
>>>
>>>
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>>
>>
>> --
>> Brian Helba
>> Medical Imaging
>> Kitware, Inc.
>>
>> _____________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at 
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>> Kitware offers ITK Training Courses, for more information visit:
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>> Please keep messages on-topic and check the ITK FAQ at:
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--
Mathieu
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