[Rtk-users] compilation issues in case of outside of ITK directory build

Wed Oct 31 11:55:59 EDT 2018

Hi,
I can reproduce the problem and I haven't found a solution yet. I'll let
you know when I have a fix...
Simon

On Sat, Oct 27, 2018 at 6:06 AM Julia Semyakishkina <
prekrasnaya1985 at gmail.com> wrote:

> Hi. Yes, i am.
> Could you just run this simple script in empty directory:
> #!/bin/sh
> wget
> https://sourceforge.net/projects/itk/files/itk/4.13/InsightToolkit-4.13.1.tar.gz
> tar -xvzf InsightToolkit-4.13.1.tar.gz
> mkdir InsightToolkit-4.13.1/build && cd InsightToolkit-4.13.1/build
> cmake -D CMAKE_BUILD_TYPE=Release -D BUILD_SHARED_LIBS:BOOL=ON .. && make
> -j`grep -c processor /proc/cpuinfo`
> ITK_DIR=`pwd`
> cd ../../
> git clone https://github.com/SimonRit/RTK
> mkdir RTK/build && cd RTK/build
> cmake -D CMAKE_BUILD_TYPE=Release -D BUILD_SHARED_LIBS:BOOL=ON -D
> BUILD_TESTING:BOOL=OFF -D ITK_DIR:PATH=$ITK_DIR .. && make
>
> Don't you have the same linker errors i wrote in the previous message ?
>
> some info about my system
> Ubuntu 17.04
> Linux mnolro6001 4.10.0-42-generic #46-Ubuntu SMP Mon Dec 4 14:38:01 UTC
> 2017 x86_64 x86_64 x86_64 GNU/Linux
> gcc version 6.3.0 20170406 (Ubuntu 6.3.0-12ubuntu2)
> cmake version 3.13.0-rc1
>
>
>
>
> On Fri, Oct 26, 2018 at 8:05 PM Simon Rit <simon.rit at creatis.insa-lyon.fr>
> wrote:
>
>> Hi,
>> Are you sure it's shared with the same compilation mode (Debug or
>> Release) ?
>> Simon
>>
>> On Fri, Oct 26, 2018 at 5:18 AM Julia Semyakishkina <
>> prekrasnaya1985 at gmail.com> wrote:
>>
>>> Ok, it works in case ITK Static -> RTK Static. When i try to build ITK
>>> Shared -> RTK Shared, i have got:
>>> [ 19%] Linking CXX executable ../../bin/rtkamsterdamshroud
>>> CMakeFiles/rtkamsterdamshroud.dir/rtkamsterdamshroud.cxx.o: In function
>>> `rtk::ThreeDCircularProjectionGeometryXMLFileReader::New()':
>>> rtkamsterdamshroud.cxx:(.text._ZN3rtk45ThreeDCircularProjectionGeometryXMLFileReader3NewEv[_ZN3rtk45ThreeDCircularProjectionGeometryXMLFileReader3NewEv]+0xe):
>>> undefined reference to `typeinfo for
>>> rtk::ThreeDCircularProjectionGeometryXMLFileReader'
>>> rtkamsterdamshroud.cxx:(.text._ZN3rtk45ThreeDCircularProjectionGeometryXMLFileReader3NewEv[_ZN3rtk45ThreeDCircularProjectionGeometryXMLFileReader3NewEv]+0x41):
>>> undefined reference to `typeinfo for
>>> rtk::ThreeDCircularProjectionGeometryXMLFileReader'
>>> rtkamsterdamshroud.cxx:(.text._ZN3rtk45ThreeDCircularProjectionGeometryXMLFileReader3NewEv[_ZN3rtk45ThreeDCircularProjectionGeometryXMLFileReader3NewEv]+0xc9):
>>> undefined reference to
>>> `rtk::ThreeDCircularProjectionGeometryXMLFileReader::ThreeDCircularProjectionGeometryXMLFileReader()'
>>> CMakeFiles/rtkamsterdamshroud.dir/rtkamsterdamshroud.cxx.o: In function
>>> `std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
>>> std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
>>> std::char_traits<char>, std::allocator<char> > > > const
>>> rtk::GetProjectionsFileNamesFromGgo<args_info_rtkamsterdamshroud>(args_info_rtkamsterdamshroud
>>> const&)':
>>> rtkamsterdamshroud.cxx:(.text._ZN3rtk30GetProjectionsFileNamesFromGgoI28args_info_rtkamsterdamshroudEEKSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS8_EERKT_[_ZN3rtk30GetProjectionsFileNamesFromGgoI28args_info_rtkamsterdamshroudEEKSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS8_EERKT_]+0x3c1):
>>> undefined reference to `rtk::RegisterIOFactories()'
>>> CMakeFiles/rtkamsterdamshroud.dir/rtkamsterdamshroud.cxx.o: In function
>>> `rtk::ProjectionsReader<itk::Image<double, 3u>
>>> >::GenerateOutputInformation()':
>>> rtkamsterdamshroud.cxx:(.text._ZN3rtk17ProjectionsReaderIN3itk5ImageIdLj3EEEE25GenerateOutputInformationEv[_ZN3rtk17ProjectionsReaderIN3itk5ImageIdLj3EEEE25GenerateOutputInformationEv]+0x8e1):
>>> undefined reference to `rtk::RegisterIOFactories()'
>>> collect2: error: ld returned 1 exit status
>>> applications/rtkamsterdamshroud/CMakeFiles/rtkamsterdamshroud.dir/build.make:141:
>>> recipe for target 'bin/rtkamsterdamshroud' failed
>>> make[2]: *** [bin/rtkamsterdamshroud] Error 1
>>> CMakeFiles/Makefile2:512: recipe for target
>>> 'applications/rtkamsterdamshroud/CMakeFiles/rtkamsterdamshroud.dir/all'
>>> failed
>>> make[1]: ***
>>> [applications/rtkamsterdamshroud/CMakeFiles/rtkamsterdamshroud.dir/all]
>>> Error 2
>>> Makefile:129: recipe for target 'all' failed
>>> make: *** [all] Error 2
>>>
>>> On Fri, Oct 26, 2018 at 2:59 AM Simon Rit <
>>> simon.rit at creatis.insa-lyon.fr> wrote:
>>>
>>>> Hi,
>>>> It seems that you are trying to compile against an installed ITK_DIR.
>>>> This is no longer possible, see this thread:
>>>> https://github.com/SimonRit/RTK/issues/207
>>>> Can you try to compile against your build directory (set ITK_DIR to the
>>>> build directory)?
>>>> Thanks,
>>>> Simon
>>>>
>>>> On Thu, Oct 25, 2018 at 5:16 PM Julia Semyakishkina <
>>>> prekrasnaya1985 at gmail.com> wrote:
>>>>
>>>>> Hello.
>>>>> I can't build RTK in Linux. I've done all default steps described in
>>>>> wiki, but on configure i've got:
>>>>> CMake Error at utilities/lp_solve/CMakeLists.txt:9 (include):
>>>>>    include could not find load file:
>>>>>
>>>>>      ITKModuleMacros
>>>>>
>>>>>
>>>>> Hm.. it tries include module that exists in src ITK dir, not install...
>>>>> I mean
>>>>> "ls /usr/local/lib/cmake/ITK-4.13 | grep ITKModuleMacros" prints
>>>>> nothing
>>>>> "ls /home/user/src/ITK/CMake | grep ITKModuleMacros" prints
>>>>> ITKModuleMacros.cmake
>>>>>
>>>>> OK, i have just tried to add
>>>>> CMAKE_MODULE_PATH=/home/user/src/ITK/CMake and got next error:
>>>>>
>>>>> CMake Error at CMakeLists.txt:250 (message):
>>>>>   Modules can only be built against an ITK build tree; they cannot be
>>>>> built
>>>>>   against an ITK install tree.
>>>>>
>>>>> Let's look at the code:
>>>>>
>>>>> if(NOT ITK_SOURCE_DIR)
>>>>>   if(NOT EXISTS ${ITK_CMAKE_DIR}/ITKModuleMacros.cmake)
>>>>>     message(FATAL_ERROR "Modules can only be built against an ITK
>>>>> build tree; they cannot be built against an ITK install tree.")
>>>>>   endif()
>>>>>   list(APPEND CMAKE_MODULE_PATH ${ITK_CMAKE_DIR})
>>>>>   include(ITKModuleExternal)
>>>>> else()
>>>>>   itk_module_impl()
>>>>> endif()
>>>>>
>>>>> Yea, ITK_SOURCE_DIR is not set in my case, but why there is must be
>>>>> ITKModuleMacros.cmake at my ITK_CMAKE_DIR dir that points to ITK
>>>>> installation dir ?
>>>>>
>>>>> If i set ITK_CMAKE_DIR to /home/user/src/ITK/CMake where
>>>>> ITKModuleMacros is, it resets back to ITK installation directory at
>>>>> # --------------------------------------------------------
>>>>> # Find ITK (required)
>>>>> if(NOT ITK_SOURCE_DIR)
>>>>>   find_package(ITK 4.12.0 REQUIRED)
>>>>> endif()
>>>>>
>>>>>
>>>>> So, the only way i see is to build inside ITK, but i am not familiar
>>>>> with this. Could anyone help me how to build RTK inside ITK.
>>>>> _______________________________________________
>>>>> Rtk-users mailing list
>>>>> Rtk-users at public.kitware.com
>>>>> https://public.kitware.com/mailman/listinfo/rtk-users
>>>>>
>>>> _______________________________________________
>>> Rtk-users mailing list
>>> Rtk-users at public.kitware.com
>>> https://public.kitware.com/mailman/listinfo/rtk-users
>>>
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