Hi Andrew, On Wed, Aug 22, 2012 at 12:17 PM, Andrew Dalke <da...@dalkescientific.com> wrote: > On Aug 17, 2012, at 11:35 AM, Greg Landrum wrote: >> Here is, hopefully, the last update on this topic. Apologies for the >> verbosity. > > I'm trying to build the latests from the new repository. Here's > the message I get: > > [ 4%] Building CXX object > Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o > Linking CXX executable testDict > ld: warning: path '/usr/lib/libpython2.7.dylib' following -L not a directory > Undefined symbols for architecture x86_64: > "boost::any RDKit::Dict::toany<std::vector<std::vector<int, > std::allocator<int> >, std::allocator<std::vector<int, std::allocator<int> > > > > >(std::vector<std::vector<int, std::allocator<int> >, > std::allocator<std::vector<int, std::allocator<int> > > >) const", referenced > from: > void RDKit::Dict::setVal<std::vector<std::vector<int, > std::allocator<int> >, std::allocator<std::vector<int, std::allocator<int> > > > > >(std::string const&, std::vector<std::vector<int, std::allocator<int> >, > std::allocator<std::vector<int, std::allocator<int> > > >&) in testDict.cpp.o > "std::vector<int, std::allocator<int> > > RDKit::Dict::fromany<std::vector<int, std::allocator<int> > >(boost::any > const&) const", referenced from: > void RDKit::Dict::getVal<std::vector<int, std::allocator<int> > > >(std::string const&, std::vector<int, std::allocator<int> >&) const in > testDict.cpp.o > "boost::any RDKit::Dict::toany<std::vector<int, std::allocator<int> > > >(std::vector<int, std::allocator<int> >) const", referenced from: > void RDKit::Dict::setVal<std::vector<int, std::allocator<int> > > >(std::string const&, std::vector<int, std::allocator<int> >&) in > testDict.cpp.o > "int RDKit::Dict::fromany<int>(boost::any const&) const", referenced from: > void RDKit::Dict::getVal<int>(std::string const&, int&) const in > testDict.cpp.o > "boost::any RDKit::Dict::toany<int>(int) const", referenced from: > void RDKit::Dict::setVal<int>(std::string const&, int&) in > testDict.cpp.o > ld: symbol(s) not found for architecture x86_64 > clang: error: linker command failed with exit code 1 (use -v to see > invocation) >
Nikolas Fechner, who has a MacBookPro running Lion, and I just got this figured out. There's a test at line 4 of $RDBASE/Code/RDGeneral/CMakeLists.txt: if(CMAKE_COMPILER_IS_GNUCXX OR CMAKE_COMPILER_IS_CLANG) # Dict.cpp behaves badly if compiled with optimization under g++ SET_SOURCE_FILES_PROPERTIES(Dict.cpp PROPERTIES COMPILE_FLAGS -O0) endif() apparently neither of those two variables is set under Lion. The "fix", which I will check in later today, is: if(NOT MSVC) # Dict.cpp behaves badly if compiled with optimization under g++ SET_SOURCE_FILES_PROPERTIES(Dict.cpp PROPERTIES COMPILE_FLAGS -O0) endif() After making this change we were able to complete an RDKit build on Niko's machine. I will try to remember to do a longer explanation of why the above is necessary later, but right now I have to run to a meeting. Hope this helps, -greg ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ Rdkit-devel mailing list Rdkit-devel@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rdkit-devel
