[ITK] exporting MHD to DICOM RT

[Amber Simpson]

Thanks all. I made a mistake in the previous: I used ITK 3.20.

I will make one last attempt to get the source code from the publication up
and running by compiling on an older Ubuntu workstation. I'll let you know
how it goes.



On Mon, Nov 21, 2016 at 4:50 PM, Dženan Zukić <dzenanz at gmail.com> wrote:

> Hi Amber,
>
> what you can try to do is use ITK 3.20.1
> <http://sourceforge.net/projects/itk/files/itk/3.20/InsightToolkit-3.20.1.tar.gz/download>,
> which is much more similar to v3.10 than ITK 4 is. Another solution for
> one-off conversion is usage of SlicerRT <http://slicerrt.github.io/>.
>
> Regards,
> Dženan
>
> On Mon, Nov 21, 2016 at 12:17 PM, Amber Simpson <simpsona at gmail.com>
> wrote:
>
>> Hi All,
>>
>> I have 200 images and segmented masks in MHD format that I would like to
>> export to DICOM RT for sharing on The Cancer Imaging Archive. There is a
>> publication that covers this topic, but the code appears to be restricted
>> to ITK 3.10. The issues I encountered while compiling on Ubuntu 16.04 and
>> OS X 10.9.5 are detailed below.
>>
>> The paper and source code:
>> http://www.insight-journal.org/browse/publication/316
>>
>> Any help would be greatly appreciated. I'm open to other approaches as
>> well.
>>
>> Thanks,
>> Amber
>>
>>
>>
>> ---------------------
>>
>>
>> Compile error on the RTSTRUCT code with ITK 4.10:
>>
>> [ 50%] Building CXX object CMakeFiles/export2RTSTRUCT.dir
>> /export2RTSTRUCT.cxx.o
>>
>> In file included from /Users/simpsonl/Dropbox/Liver/
>> src/RTSTRUCT/export2RTSTRUCT.cxx:8:
>>
>> */Users/simpsonl/Dropbox/Liver/src/RTSTRUCT/itkRTSTRUCTIO.h:28:10: **fatal
>> error: *
>>
>> *      'gdcmSeqEntry.h' file not found*
>>
>> #include "gdcmSeqEntry.h"
>>
>> *         ^*
>>
>> There is a bug report discussed here:
>> http://public.kitware.com/pipermail/insight-users/2009-April/029900.html
>>
>>
>> The error is apparently solved by reverting to ITK 3.10. Unfortunately,
>> ITK 3.10 is not compiling on either workstation. This is the compile error
>> with ITK 3.10 on OS X (Ubuntu was similarly problematic):
>>
>> */Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:668:1:
>> note: *
>>
>>       candidate function
>>
>> abs(long double __x) _NOEXCEPT {return fabsl(__x);}
>>
>> *^*
>>
>> 27 warnings and 4 errors generated.
>>
>> This is apparently solvable with ITK 4:
>>
>> https://itk.org/pipermail/insight-users/2015-March/051696.html
>>
>> and the cycle continues ...
>>
>>
>>
>>
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>>
>>
>
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