[Insight-users] Exporting Segmentation Results to RTSTRUCT using ITK

[Subrahmanyam Gorthi]

Hi Luis,

Thank you very much.

I will try to submit it to the IJ soon.

Warm Regards,
Subrahmanyam Gorthi.



On Tue, Sep 16, 2008 at 11:07 PM, Luis Ibanez <luis.ibanez at kitware.com>wrote:

>
> Hi Subrahmanyam,
>
>
> It will be great to have your contribution
> submitted to the Insight Journal.
>
>
> About your question regarding upload limits:
>
>   The IJ currently supports upload up to 500MB,
>   this limit is flexible and can be increased
>   easily if necessary (up to 2GB).
>
>
> Therefore the 60Mb of your dataset should pass fine.
>
>
>   Regards,
>
>
>      Luis
>
>
> ----------------------------
> Subrahmanyam Gorthi wrote:
>
>> Dear Mathieu,
>>
>> I am very happy to inform that I am now able to export the segmentation
>> results to RTSTRUCT using ITK.
>> Thanks a lot for your valuable guidance on the pipeline, handling DICOM
>> sequences and converting 3-D mask to contour.
>>
>> *The inputs to the current Exporter are:*
>> *
>>  1. A DICOM slice of the CT image:*
>>      For extracting patient related and other common information.
>>
>> *  2. 3-D Masks of the segmentation regions: *
>>     These are converted to contours using the
>> itkContourExtractor2DImageFilter & itkExtractImageFilter and is given as
>> input input to the RTSTRUCT writer.
>>
>>  *3. Few other parameters:
>>     *Parameters like names to be assigned to the ROIs, Number of ROIs to
>> be exported, type of contours etc...
>> *
>> The output of the Exporter:*   RTSTRUCT DICOM file.
>>
>> I verified the results by viewing the output file in a DICOM dumper, and
>> also by superposing the RTSTRUCT contours over the DICOM CT image, using
>> some third party tools. The code seems to work fine :-)
>>
>> Now RTSTRUCT Writer part is done. but RTSTRUCT Reader is yet to be written
>> :-(
>> Since the above application does not need RTSTRUCT Reader, I first started
>> with the RTSTRUCT Writer.
>> Still many modifications and cleanup are to be done for RTSTRUCT writer
>> itself for using it for other general applications.
>>
>> My doubt is: for contributing this part to ITK (Insight Journal?), how
>> should I manage the modified/added files?
>>
>> In my code, I *added *the following files to the *ITK\Code\IO direcory*:
>> 1. itkRTSTRUCTIO.h
>> 2. itkRTSTRUCTIO.cxx
>> 3. itkRTSTRUCTIOFactory.h
>> 4. itkRTSTRUCTIOFactory.cxx
>>
>> I *modified* the following files in *ITK\Utilities\gdcm\src directory* by
>> adding few additional functions:
>> 1. gdcmFile.cxx
>> 2. gdcmFileHelper.h
>> 3. gdcmFileHelper.cxx
>>
>> There are two other files: mask2contour.cxx & Export2RTSTRUCT.cxx.
>>
>> Can I simply put all the above files in a single folder and submit to the
>> Insight journal along with the paper?
>> (I still need to do significant cleanup and write the IJ-Paper :D)
>>
>> The DICOM files that I am using for testing are bit large (around 60 MB).
>> Is there any size limit for IJ submission?
>>
>> Once again many thanks for your help.
>>
>> Warm Regards,
>> Subrahmanyam Gorthi.
>>
>>
>>
>>
>>
>>
>> ------------------------------------------------------------------------
>>
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>>
>
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