CGAL users discussion list

[Dror Atariah <>]

Well, I compiled the example using the alpha version of eigen and obtained an 
executable (i.e. no compilation errors were generated). Then I tried to run 
it and go the "Segmentation fault". 

Let me know what further details can I provide?

All the best,
Dror
On Jun 21, 2012, at 08:01 AM, Sebastien Loriot (GeometryFactory) wrote:

> On 06/20/2012 06:55 PM, Dror Atariah wrote:
>> This indeed solved the problem, and compilation managed to be completed!
>> 
>> However, trying to run the resulting executable yielded: "Segmentation 
>> fault"
>> 
>> I guess this means that this is a new problem, so should I send a new 
>> email?
> Indeed, it would be nice if you explain what you did to see if we can 
> reproduce the problem.
> 
> thanks,
> 
> Sebastien.
> 
> 
>> 
>> Thanks a lot for the quick answers!
>> 
>> 
>> On Jun 20, 2012, at 17:43 PM, Sebastien Loriot (GeometryFactory) wrote:
>> 
>>> There is indeed a compatibility problem of CGAL with the version
>>> 3.1.0-rc1 of Eigen. We'll fix that.
>>> 
>>> In the meantime, can you use Eigen 3.1.0-alpha1 which I know is working.
>>> 
>>> Sorry for the inconvenience.
>>> 
>>> Sebastien.
>>> 
>>> 
>>> On 06/20/2012 05:27 PM, Dror Atariah wrote:
>>>> I cleared all the previously generated Cmake related files. Then I ran 
>>>> the cgal_create_cmake_script and then what you suggested:
>>>>> "cmake -DEIGEN3_INCLUDE_DIR=/Users/drorata/Library/eigen3.1.0-rc1 ."
>>>> 
>>>> This was the output:
>>>> ---(Output)---
>>>> -- The C compiler identification is GNU 4.2.1
>>>> -- The CXX compiler identification is GNU 4.2.1
>>>> -- Checking whether C compiler has -isysroot
>>>> -- Checking whether C compiler has -isysroot - yes
>>>> -- Checking whether C compiler supports OSX deployment target flag
>>>> -- Checking whether C compiler supports OSX deployment target flag - yes
>>>> -- Check for working C compiler: /usr/bin/gcc
>>>> -- Check for working C compiler: /usr/bin/gcc -- works
>>>> -- Detecting C compiler ABI info
>>>> -- Detecting C compiler ABI info - done
>>>> -- Checking whether CXX compiler has -isysroot
>>>> -- Checking whether CXX compiler has -isysroot - yes
>>>> -- Checking whether CXX compiler supports OSX deployment target flag
>>>> -- Checking whether CXX compiler supports OSX deployment target flag - 
>>>> yes
>>>> -- Check for working CXX compiler: /usr/bin/c++
>>>> -- Check for working CXX compiler: /usr/bin/c++ -- works
>>>> -- Detecting CXX compiler ABI info
>>>> -- Detecting CXX compiler ABI info - done
>>>> -- Build type: Release
>>>> -- USING CXXFLAGS = '-pipe -O2 -arch x86_64  -frounding-math 
>>>> -fno-strict-aliasing -O3 -DNDEBUG'
>>>> -- USING EXEFLAGS = ' -L/opt/local/lib -arch x86_64 
>>>> -Wl,-dylib_file,/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib:/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib
>>>>  '
>>>> -- Targetting Unix Makefiles
>>>> -- Using /usr/bin/c++ compiler.
>>>> -- DARWIN_VERSION=10
>>>> -- Mac Leopard detected
>>>> -- Configuring done
>>>> -- Generating done
>>>> CMake Warning:
>>>>  Manually-specified variables were not used by the project:
>>>> 
>>>>    EIGEN3_INCLUDE_DIR
>>>> 
>>>> 
>>>> -- Build files have been written to: 
>>>> /Users/drorata/Documents/academics/programing/CGAL/Surface_reconstruction_points_3_CGAL_4
>>>> ---(Output END)---
>>>> 
>>>> Then trying to compile the example yielded:
>>>> ---(Output)---
>>>> In file included from 
>>>> /opt/local/include/CGAL/Poisson_reconstruction_function.h:32,
>>>>                 from 
>>>> /Users/drorata/Documents/academics/programing/CGAL/Surface_reconstruction_points_3_CGAL_4/poisson_reconstruction_example.cpp:10:
>>>> /opt/local/include/CGAL/Eigen_solver_traits.h:24:24: error: 
>>>> Eigen/Sparse: No such file or directory
>>>> In file included from /opt/local/include/CGAL/Eigen_solver_traits.h:26,
>>>>                 from 
>>>> /opt/local/include/CGAL/Poisson_reconstruction_function.h:32,
>>>>                 from 
>>>> /Users/drorata/Documents/academics/programing/CGAL/Surface_reconstruction_points_3_CGAL_4/poisson_reconstruction_example.cpp:10:
>>>> /opt/local/include/CGAL/Eigen_vector.h:24:22: error: Eigen/Core: No such 
>>>> file or directory
>>>> ...(CONTINUES)
>>>> ---(Output END)---
>>>> 
>>>> This seems not to work.
>>>> 
>>>> I don't think that the problem is finding EIGEN. Currently I have (as 
>>>> Michael Hemmer suggested) the following line in my CMakeLists.txt:
>>>>    include_directories (BEFORE "~/Library/eigen3.1.0-rc1/")
>>>> 
>>>> It seems like neither your suggestion nor setting EIGEN3_INC_DIR to the 
>>>> eigen's location helps.
>>>> 
>>>> Anyway, with either Michael's trick or Menelaos' (which was adding a 
>>>> soft link to the include directory of the example which pointed to the 
>>>> location of eigen) it seems like eigen can be found, but the compilation 
>>>> error is always there.
>>>> 
>>>> Dror.
>>>> On Jun 20, 2012, at 16:55 PM, Sebastien Loriot (GeometryFactory) wrote:
>>>> 
>>>>> Try:
>>>>> 
>>>>> "cmake -DEIGEN3_INCLUDE_DIR=/Users/drorata/Library/eigen3.1.0-rc1 ."
>>>>> 
>>>>> There should be no need to do something else for the demo.
>>>>> 
>>>>> This was documented on that page:
>>>>> 
>>>>> http://www.cgal.org/Manual/latest/doc_html/installation_manual/Chapter_installation_manual.html#Subsection_10.4
>>>>> 
>>>>> Sebastien.
>>>>> 
>>>>> On 06/20/2012 04:19 PM, 
>>>>> 
>>>>>  wrote:
>>>>>> I have installed *CGAL 4.0* on a Mac OS 10.6 using *macports*. As a 
>>>>>> test
>>>>>> case, I tried to compile the example given in /Triangulation_2/, using 
>>>>>> the
>>>>>> standard procedure:
>>>>>> - cgal_create_cmake_script
>>>>>> - cmake .
>>>>>> - make
>>>>>> 
>>>>>> This worked like a charm and suggests, if I understand it correctly, 
>>>>>> that
>>>>>> CGAL's installation is OK.
>>>>>> 
>>>>>> Next, I wanted to compile and consider the example
>>>>>> /Surface_reconstruction_points_3/. Here things got messy. I'll try to
>>>>>> describe the steps I took (some of them with the great help of Menelaos
>>>>>> Karavelas and Michael Hemmer. Thank you Menelaos and MIchael) in order 
>>>>>> to
>>>>>> resolve the issue.
>>>>>> 
>>>>>> The version of Eigen shipped with the CGAL installation through 
>>>>>> macports is
>>>>>> old, and thus I downloaded manually the latest version of eigen 
>>>>>> (3.1.0-rc1).
>>>>>> In addition, I added the following line to the CMakeLists.txt:
>>>>>> 
>>>>>>     include_directories (BEFORE "~/Library/eigen3.1.0-rc1/")
>>>>>> where ~/Library/eigen3.1.0-rc1/ is where the file
>>>>>> "signature_of_eigen3_matrix_library" is located.
>>>>>> This should make sure that eigen will be looked for in the right 
>>>>>> location.
>>>>>> 
>>>>>> Then I added
>>>>>> 
>>>>>>     #define CGAL_EIGEN3_ENABLED
>>>>>> 
>>>>>> to the example "poisson_reconstruction_example.cpp". Finally, I ran:
>>>>>> - cmake .
>>>>>> - make poisson_reconstruction_example
>>>>>> 
>>>>>> Then I got the following compilation error:
>>>>>> 
>>>>>> ---Compilation Error Cite---
>>>>>> /Users/drorata/Library/eigen3.1.0-rc1/Eigen/src/Core/util/Meta.h: In 
>>>>>> copy
>>>>>> constructor
>>>>>> ‘Eigen::IterativeSolverBase<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >
>>>>>>> ::IterativeSolverBase(const
>>>>>> Eigen::IterativeSolverBase<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >    >&)’:
>>>>>> /Users/drorata/Library/eigen3.1.0-rc1/Eigen/src/IterativeLinearSolvers/
>>>>>> IterativeSolverBase.h:37:   instantiated from ‘bool
>>>>>> CGAL::Poisson_reconstruction_function<Gt>::compute_implicit_function() 
>>>>>> [with
>>>>>> Gt = CGAL::Epick]’
>>>>>> /Users/drorata/Documents/academics/programing/CGAL/
>>>>>> Surface_reconstruction_points_3_CGAL_4/poisson_reconstruction_example.cpp:65:
>>>>>> instantiated from here
>>>>>> /Users/drorata/Library/eigen3.1.0-rc1/Eigen/src/Core/util/Meta.h:113: 
>>>>>> error:
>>>>>> ‘Eigen::internal::noncopyable::noncopyable(const
>>>>>> Eigen::internal::noncopyable&)’ is private
>>>>>> /Users/drorata/Library/eigen3.1.0-rc1/Eigen/src/IterativeLinearSolvers/
>>>>>> IterativeSolverBase.h:37: error: within this context
>>>>>> /Users/drorata/Library/eigen3.1.0-rc1/Eigen/src/IterativeLinearSolvers/
>>>>>> ConjugateGradient.h: In copy constructor
>>>>>> ‘Eigen::ConjugateGradient<Eigen::SparseMatrix<double, 0, int>, 1,
>>>>>> Eigen::DiagonalPreconditioner<double>    >::ConjugateGradient(const
>>>>>> Eigen::ConjugateGradient<Eigen::SparseMatrix<double, 0, int>, 1,
>>>>>> Eigen::DiagonalPreconditioner<double>    >&)’:
>>>>>> /Users/drorata/Library/eigen3.1.0-rc1/Eigen/src/IterativeLinearSolvers/
>>>>>> ConjugateGradient.h:160:   instantiated from ‘bool
>>>>>> CGAL::Poisson_reconstruction_function<Gt>::compute_implicit_function() 
>>>>>> [with
>>>>>> Gt = CGAL::Epick]’
>>>>>> /Users/drorata/Documents/academics/programing/CGAL/
>>>>>> Surface_reconstruction_points_3_CGAL_4/poisson_reconstruction_example.cpp:65:
>>>>>> instantiated from here
>>>>>> /Users/drorata/Library/eigen3.1.0-rc1/Eigen/src/IterativeLinearSolvers/
>>>>>> ConjugateGradient.h:160: note: synthesized method
>>>>>> ‘Eigen::IterativeSolverBase<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >
>>>>>>> ::IterativeSolverBase(const
>>>>>> Eigen::IterativeSolverBase<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >    >&)’ first 
>>>>>> required here
>>>>>> /opt/local/include/CGAL/Eigen_solver_traits.h: In copy constructor
>>>>>> ‘CGAL::Eigen_solver_traits<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >
>>>>>>> ::Eigen_solver_traits(const
>>>>>> CGAL::Eigen_solver_traits<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >    >&)’:
>>>>>> /opt/local/include/CGAL/Eigen_solver_traits.h:58:   instantiated from 
>>>>>> ‘bool
>>>>>> CGAL::Poisson_reconstruction_function<Gt>::compute_implicit_function() 
>>>>>> [with
>>>>>> Gt = CGAL::Epick]’
>>>>>> /Users/drorata/Documents/academics/programing/CGAL/
>>>>>> Surface_reconstruction_points_3_CGAL_4/poisson_reconstruction_example.cpp:65:
>>>>>> instantiated from here
>>>>>> /opt/local/include/CGAL/Eigen_solver_traits.h:58: note: synthesized 
>>>>>> method
>>>>>> ‘Eigen::ConjugateGradient<Eigen::SparseMatrix<double, 0, int>, 1,
>>>>>> Eigen::DiagonalPreconditioner<double>    >::ConjugateGradient(const
>>>>>> Eigen::ConjugateGradient<Eigen::SparseMatrix<double, 0, int>, 1,
>>>>>> Eigen::DiagonalPreconditioner<double>    >&)’ first required here
>>>>>> /opt/local/include/CGAL/Poisson_reconstruction_function.h: In member 
>>>>>> function
>>>>>> ‘bool 
>>>>>> CGAL::Poisson_reconstruction_function<Gt>::compute_implicit_function()
>>>>>> [with Gt = CGAL::Epick]’:
>>>>>> /opt/local/include/CGAL/Poisson_reconstruction_function.h:264: note:
>>>>>> synthesized method
>>>>>> ‘CGAL::Eigen_solver_traits<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >
>>>>>>> ::Eigen_solver_traits(const
>>>>>> CGAL::Eigen_solver_traits<Eigen::ConjugateGradient<Eigen::SparseMatrix<double,
>>>>>> 0, int>, 1, Eigen::DiagonalPreconditioner<double>    >    >&)’ first 
>>>>>> required here
>>>>>> make[3]: *** [CMakeFiles/poisson_reconstruction_example.dir/
>>>>>> poisson_reconstruction_example.cpp.o] Error 1
>>>>>> make[2]: *** [CMakeFiles/poisson_reconstruction_example.dir/all] Error 
>>>>>> 2
>>>>>> make[1]: *** [CMakeFiles/poisson_reconstruction_example.dir/rule] 
>>>>>> Error 2
>>>>>> make: *** [poisson_reconstruction_example] Error 2
>>>>>> ---Compilation Error END---
>>>>>> 
>>>>>> I am unable to find what the problem is? Seems like it is either a 
>>>>>> problem in
>>>>>> EIGEN, or the way it is being using in CGAL/this specific example.
>>>>>> 
>>>>>> If further details regarding my setting etc. is needed please let me 
>>>>>> know.
>>>>>> 
>>>>>> Thanks in advance!
>>>>>> Dror Atariah
>>>>>> 
>>>>>> PS: I'm in Chapel Hill till tomorrow, so if you're around I'm 
>>>>>> available to
>>>>>> have a look at the problem together.
>>>>>> 
>>>>> 
>>>>> 
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>>>> 
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