[IMP-users] IMP svn compiling issues Mac OS X 10.6 fink-64

[Benjamin SCHWARZ <>]

Hi list

I try a compilation of IMP svn 6742   on   Macbook laptop OS X 10.6
*  Fink 64 bits installed (in /sw) with packages : 
    cgal-4  fftw-3  boost1.35.python26  boost1.35.nopython    gsl   and graphviz 
*  Ann hand installed in /usr/local
*  Modeller installed as most recent MAC dmg

And I have several problems :

1.) the compilation process fails on cgal polyhedron compilation

g++ -o modules/cgal/src/internal/polyhedrons.os -c -Os -fno-common -dynamic -I/BenInstalls/imp-install/imp-debug/include -I/opt/local/include -I/sw/include -Wall -Wno-deprecated -Woverloaded-virtual -g -fno-finite-math-only -ftrapping-math -fsignaling-nans -fno-float-store -frounding-math -fno-strict-aliasing -DCGAL_DISABLE_ROUNDING_MATH_CHECK -fvisibility=hidden -fPIC -DIMPCGAL_EXPORTS -DGCC_VISIBILITY -Ibuild/include -I/BenInstalls/imp/src/build/include -I/usr/local/include -I/sw/include -I/usr/local/ann/ann_1.1.2/include /BenInstalls/imp/src/modules/cgal/src/internal/polyhedrons.cpp
In file included from /sw/include/CGAL/Nef_3/SNC_items.h:26,
                 from /sw/include/CGAL/Nef_3/Default_items.h:21,
                 from /sw/include/CGAL/Nef_polyhedron_3.h:29,
                 from /BenInstalls/imp/src/modules/cgal/src/internal/polyhedrons.cpp:8:
/sw/include/CGAL/Nef_3/Halfedge.h: In member function 'typename Refs::Vector_3 CGAL::Halfedge_base<Refs>::vector() const':
/sw/include/CGAL/Nef_3/Halfedge.h:110: error: 'ORIGIN' is not a member of 'CGAL'
/usr/include/c++/4.2.1/bits/stl_function.h: In member function 'bool std::less<_Tp>::operator()(const _Tp&, const _Tp&) const 

[..] CGAL awful template insult [..]

/BenInstalls/imp/src/modules/cgal/src/internal/polyhedrons.cpp:100:   instantiated from here
/usr/include/c++/4.2.1/bits/stl_function.h:227: error: no match for 'operator<' in '__x < __y'

[..] a few lines with replacement propositions for this operator [..]

Enabled dependencies:  python, ANN, NetCDF, FFTW3, GSL, CGAL, Boost.ProgramOptions
Disabled/unfound optional dependencies:  Boost.FileSystem, ExampleLib, Bullet

Enabled modules:  kernel, cgal, algebra, core, container, atom, display, domino, em, example, misc, saxs, helper, statistics, gsl, modeller, restrainer, domino2, benchmark
Disabled modules: em2d, multifit, bullet
Errors building:
  modules/cgal/src/internal/polyhedrons.os


2.) I was then able to continue the compilation by disabling the cgal dependency (cgal="no" in the config.py). It then goes on quite a long time then crashes at link time on :

g++ -o applications/saxs/profile.o -c -Os -fno-common -dynamic -I/BenInstalls/imp-install/imp-debug/include -I/opt/local/include -I/sw/include -Wall -Wno-deprecated -Woverloaded-virtual -g -Ibuild/include -I/BenInstalls/imp/src/build/include -I/usr/local/include -I/sw/include -I/usr/local/ann/ann_1.1.2/include /BenInstalls/imp/src/applications/saxs/profile.cpp
g++ -o applications/saxs/foxs -g applications/saxs/profile.o applications/saxs/Gnuplot.o -Lbuild/lib -L/BenInstalls/imp/src/build/lib -L/usr/local/lib -L/sw/lib -L/usr/local/ann/ann_1.1.2/lib -L/BenInstalls/imp-install/imp-debug/lib -limp_saxs -limp_atom -limp_container -limp_core -limp_algebra -limp -lANN -lnetcdf_c++ -lboost_program_options
ld: warning: directory '/BenInstalls/imp/src/build/lib' following -L not found
ld: warning: directory '/BenInstalls/imp-install/imp-debug/lib' following -L not found
Undefined symbols:
  "boost::program_options::options_description::options_description(std::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int)", referenced from:
      _main in profile.o
ld: symbol(s) not found
collect2: ld returned 1 exit status
scons: *** [applications/saxs/foxs] Error 1
scons: building terminated because of errors.

Any hint appreciated.

     --Ben Schwarz