[Insight-users] Duplicate symbols from OpenJPEG with system GDCM and ITK 4.4

[Xiaoxiao Liu]

Will this help?
http://review.source.kitware.com/#/c/12083/



On Wed, Jul 24, 2013 at 12:47 PM, Simon Rit
<simon.rit at creatis.insa-lyon.fr>wrote:

> Thanks! But itt's not sufficient. The cmake command gives
> -- Enabled ITKOpenJPEG, needed by [ITKGDCM].
>
> I have been a bit further. If I manually remove the dependency to OpenJPEG:
> diff --git a/Modules/ThirdParty/GDCM/itk-module.cmake
> b/Modules/ThirdParty/GDCM/itk-module.cmake
> index 37ba9e4..c67a8f5 100644
> --- a/Modules/ThirdParty/GDCM/itk-module.cmake
> +++ b/Modules/ThirdParty/GDCM/itk-module.cmake
> @@ -6,7 +6,6 @@ itk_module(ITKGDCM
>    DEPENDS
>      ITKZLIB
>      ITKExpat
> -    ITKOpenJPEG
>    DESCRIPTION
>      "${DOCUMENTATION}"
>  )
>
> I get :
> /Users/srit/src/itk4/itk/Modules/Nonunit/Review/src/itkJPEG2000ImageIO.cxx:29:12:
> fatal error:
>       'openjpeg.h' file not found
>   #include "openjpeg.h"
>
> I'm quite surprised because ITK_USE_REVIEW and BUILD_TESTING are OFF...
> Anyway, I ignored this (make -k) and I can then compile my software. So the
> dependency to ITKOpenJPEG would have to be removed in ITKGDCM if
> ITK_USE_SYSTEM_GDCM is ON.
>
> As a side note, I tried to remove the compilation of the module ITKGDCM
> but that failed. I also tried to use gdcm as described in its documentation
> but that failed too:
>
> diff --git a/Modules/ThirdParty/GDCM/itk-module-init.cmake
> b/Modules/ThirdParty/GDCM/itk-module-init.cmak
> index c04c639..90cea5f 100644
> --- a/Modules/ThirdParty/GDCM/itk-module-init.cmake
> +++ b/Modules/ThirdParty/GDCM/itk-module-init.cmake
> @@ -3,4 +3,5 @@ mark_as_advanced(ITK_USE_SYSTEM_GDCM)
>
>  if(ITK_USE_SYSTEM_GDCM)
>    find_package(GDCM REQUIRED)
> +  include(${GDCM_USE_FILE})
>  endif()
>
> I hope this (mess) helps...
> Simon
>
>
> On Wed, Jul 24, 2013 at 5:43 PM, Matt McCormick <
> matt.mccormick at kitware.com> wrote:
>
>> Hi Simon,
>>
>> Please try this patch:
>>
>>   http://review.source.kitware.com/#/c/12078/
>>
>> Thanks,
>> Matt
>>
>> On Wed, Jul 24, 2013 at 9:40 AM, Simon Rit
>> <simon.rit at creatis.insa-lyon.fr> wrote:
>> > Hi,
>> > I am trying to build an application (http://vv.creatis.insa-lyon.fr/)
>> under
>> > MacOS with system GDCM (latest version from git) and ITK 4.4. At link
>> time,
>> > I get duplicate symbol errors because itk and gdcm both compile
>> openjpeg,
>> > for example :
>> >
>> > duplicate symbol _j2k_convert_progression_order in:
>> >     /Users/srit/src/itk4/mac64/lib/libitkopenjpeg-4.4.a(j2k.c.o)
>> >     /Users/srit/src/gdcm/mac64-install/lib/libgdcmopenjpeg.a(j2k.c.o)
>> >
>> > I did not find an easy way to fix this. Is there a way to disable the
>> build
>> > of OpenJPEG when gdcm system is used? No matter what I do, the module
>> > ITKOpenJPEG is built when ITK IOs are built...
>> > Thanks in advance,
>> > Simon
>> >
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>
>
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>
> Visit other Kitware open-source projects at
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>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
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>


-- 


---------------------------------------------
*Xiaoxiao Liu*, Ph.D.
R & D Engineer
Kitware Inc <http://www.kitware.com/>.
Clifton Park, NY
Phone: (518) 881-4924  or  (518) 371-3971 x124
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