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

Wed Jul 24 16:08:36 EDT 2013

Thanks, after merging your two branches, everything compiles fine.
Simon

On Wed, Jul 24, 2013 at 8:55 PM, Xiaoxiao Liu <xiaoxiao.liu at kitware.com>wrote:

> and this one to exclude ITKReview from building when ITK_USE_REVIEW is
> turned OFF:
> http://review.source.kitware.com/#/c/12084/
>
>
> On Wed, Jul 24, 2013 at 1:58 PM, Xiaoxiao Liu <xiaoxiao.liu at kitware.com>wrote:
>
>> 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
>>>> >
>>>> > _____________________________________
>>>> > Powered by www.kitware.com
>>>> >
>>>> > Visit other Kitware open-source projects at
>>>> > http://www.kitware.com/opensource/opensource.html
>>>> >
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>>>> > http://www.kitware.com/products/protraining.php
>>>> >
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>>>> >
>>>>
>>>
>>>
>>> _____________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://www.kitware.com/products/protraining.php
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
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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
>>
>>
>
>
> --
>
>
> ---------------------------------------------
> *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
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://www.itk.org/mailman/listinfo/insight-users
>
>
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