Have you tried to remove the CMake cache file before rerun cmake? rm -f CMakeCache.txt
After rerun cmake, take a look at that file again and make sure things like Boost_INCLUDE_DIR and Boost_LIBRARY_DIRS all point to /usr/local/include and /usr/local/lib, etc. Eddie On Nov 15, 2010, at 12:45 PM, Robert DeLisle wrote: > I've been working to build RDKit on Centos 5, and I'm hitting a very common > error. Unfortunately, none of the standard fixes have helped. > > Details: > > The error that I'm seeing is this: > > [ 82%] Building CXX object > Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o > [ 83%] Building CXX object > Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o > [ 83%] Building CXX object > Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o > [ 84%] Building CXX object > Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o > Linking CXX shared library libSLNParse.so > /usr/bin/ld: /usr/lib/../lib64/libboost_regex.a(instances.o): relocation > R_X86_64_32 against > `boost::object_cache<boost::re_detail::cpp_regex_traits_base<char>, > boost::re_detail::cpp_regex_traits_implementation<char> > >::do_get(boost::re_detail::cpp_regex_traits_base<char> const&, unsigned > long)::s_data' can not be used when making a shared object; recompile with > -fPIC > /usr/lib/../lib64/libboost_regex.a: could not read symbols: Bad value > collect2: ld returned 1 exit status > make[2]: *** [Code/GraphMol/SLNParse/libSLNParse.so] Error 1 > make[1]: *** [Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/all] Error 2 > make: *** [all] Error 2 > > > I've taken the standard steps of building Python (v2.7) with the -fPIC flag. > Specficially, I attached CFLAGS=-fPIC to configure in the Python build. This > solved the first instance of this type of error occuring at about 3%. > > I've also tried the two fixes for Boost with the following command line to > build RDKit: > > cmake -DBOOST_ROOT=/usr/local -DBoost_USE_STATIC_LIBS=OFF .. > > > I still get this error, and I notice that the Boost libraries that are being > referred to are actually the system installation in usr/lib64 and not those > that I've build in /usr/local/lib. It would seem that I can't seem to force > make to look in the right location. > > Any tips are greatly apprciated. > > -Kirk > > > > ------------------------------------------------------------------------------ > Centralized Desktop Delivery: Dell and VMware Reference Architecture > Simplifying enterprise desktop deployment and management using > Dell EqualLogic storage and VMware View: A highly scalable, end-to-end > client virtualization framework. Read more! > http://p.sf.net/sfu/dell-eql-dev2dev_______________________________________________ > Rdkit-discuss mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/rdkit-discuss ------------------------------------------------------------------------------ Centralized Desktop Delivery: Dell and VMware Reference Architecture Simplifying enterprise desktop deployment and management using Dell EqualLogic storage and VMware View: A highly scalable, end-to-end client virtualization framework. Read more! http://p.sf.net/sfu/dell-eql-dev2dev _______________________________________________ Rdkit-discuss mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/rdkit-discuss
