*Here is the clang version:*
$ clang --version
Apple clang version 4.1 (tags/Apple/clang-421.11.66) (based on LLVM 3.1svn)
Target: x86_64-apple-darwin12.5.0
Thread model: posix
*I did "--do-update" and the installation went further than the previous
one and I get a new set of errors:*
*Linking CXX shared library libvotca_csg.dylib*
Undefined symbols for architecture x86_64:
"boost::system::system_category()", referenced from:
__GLOBAL__I_a in dlpolytopologyreader.cc.o
__GLOBAL__I_a in dlpolytrajectoryreader.cc.o
__GLOBAL__I_a in dlpolytrajectorywriter.cc.o
"boost::system::generic_category()", referenced from:
__GLOBAL__I_a in dlpolytopologyreader.cc.o
__GLOBAL__I_a in dlpolytrajectoryreader.cc.o
__GLOBAL__I_a in dlpolytrajectorywriter.cc.o
"boost::filesystem::path::parent_path() const", referenced from:
votca::csg::DLPOLYTopologyReader::ReadTopology(std::string,
votca::csg::Topology&) in dlpolytopologyreader.cc.o
votca::csg::DLPOLYTrajectoryReader::Open(std::string const&) in
dlpolytrajectoryreader.cc.o
votca::csg::DLPOLYTrajectoryWriter::Open(std::string, bool) in
dlpolytrajectorywriter.cc.o
"boost::filesystem::path::stem() const", referenced from:
votca::csg::DLPOLYTopologyReader::ReadTopology(std::string,
votca::csg::Topology&) in dlpolytopologyreader.cc.o
votca::csg::DLPOLYTrajectoryReader::Open(std::string const&) in
dlpolytrajectoryreader.cc.o
votca::csg::DLPOLYTrajectoryWriter::Open(std::string, bool) in
dlpolytrajectorywriter.cc.o
"boost::filesystem::path::extension() const", referenced from:
votca::csg::DLPOLYTrajectoryReader::Open(std::string const&) in
dlpolytrajectoryreader.cc.o
votca::csg::DLPOLYTrajectoryWriter::Open(std::string, bool) in
dlpolytrajectorywriter.cc.o
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see
invocation)
make[2]: *** [src/libcsg/libvotca_csg.3.dylib] Error 1
make[1]: *** [src/libcsg/CMakeFiles/votca_csg.dir/all] Error 2
make: *** [all] Error 2
On Wednesday, May 21, 2014 12:01:54 AM UTC-4, Christoph Junghans wrote:
>
> 2014-05-20 13:46 GMT-06:00 Jan Michael Carrillo
> <[email protected]<javascript:>>:
>
> > otool -L /usr/local/lib/libboost_filesystem-mt.dylib
> > /usr/local/lib/libboost_filesystem-mt.dylib:
> > /usr/local/lib/libboost_filesystem-mt.dylib (compatibility version
> 0.0.0,
> > current version 0.0.0)
> > /usr/local/lib/libboost_system-mt.dylib (compatibility version 0.0.0,
> > current version 0.0.0)
> > /usr/lib/libstdc++.6.dylib (compatibility version 7.0.0, current version
> > 56.0.0)
> > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version
> > 169.3.0)
> So obviously libboost_filesystem-mt.dylib loads libboost_system-mt.dylib.
> That is a bit confusing.
>
> Which version of clang is that? ($ clang --version)
>
> I pushed a change to the tools repository, maybe that one helps.(add
> "--do-update" to your build.sh command line to get it.)
>
> >
> > On Tuesday, May 20, 2014 3:37:48 PM UTC-4, Christoph Junghans wrote:
> >>
> >> 2014-05-20 12:22 GMT-06:00 Jan Michael Carrillo <[email protected]>:
> >> > Here it is:
> >> >
> >> > Boost_DIR:PATH=Boost_DIR-NOTFOUND
> >> >
> >> >
> Boost_FILESYSTEM_LIBRARY:FILEPATH=/usr/local/lib/libboost_filesystem-mt.dylib
>
> >> Ok can you run
> >> $ otool -L /usr/local/lib/libboost_filesystem-mt.dylib
> >> and see if libboost_system-mt.dylib shows up.
> >>
> >> >
> >> >
> Boost_FILESYSTEM_LIBRARY_DEBUG:FILEPATH=/usr/local/lib/libboost_filesystem-mt.dylib
>
>
> >> >
> >> >
> Boost_FILESYSTEM_LIBRARY_RELEASE:FILEPATH=/usr/local/lib/libboost_filesystem-mt.dylib
>
>
> >> > Boost_INCLUDE_DIR:PATH=/usr/local/include
> >> > Boost_LIBRARY_DIRS:FILEPATH=/usr/local/lib
> >> >
> >> >
> Boost_PROGRAM_OPTIONS_LIBRARY:FILEPATH=/usr/local/lib/libboost_program_options-mt.dylib
>
>
> >> >
> >> >
> Boost_PROGRAM_OPTIONS_LIBRARY_DEBUG:FILEPATH=/usr/local/lib/libboost_program_options-mt.dylib
>
>
> >> >
> >> >
> Boost_PROGRAM_OPTIONS_LIBRARY_RELEASE:FILEPATH=/usr/local/lib/libboost_program_options-mt.dylib
>
>
> >> > Boost_FILESYSTEM_FOUND:INTERNAL=ON
> >> > Boost_FILESYSTEM_LIBRARY-ADVANCED:INTERNAL=1
> >> > Boost_FILESYSTEM_LIBRARY_DEBUG-ADVANCED:INTERNAL=1
> >> > Boost_FILESYSTEM_LIBRARY_RELEASE-ADVANCED:INTERNAL=1
> >> > Boost_INCLUDE_DIR-ADVANCED:INTERNAL=1
> >> > Boost_LIBRARY_DIRS-ADVANCED:INTERNAL=1
> >> > Boost_LIB_VERSION:INTERNAL=1_52
> >> > Boost_PROGRAM_OPTIONS_FOUND:INTERNAL=ON
> >> > Boost_PROGRAM_OPTIONS_LIBRARY-ADVANCED:INTERNAL=1
> >> > Boost_PROGRAM_OPTIONS_LIBRARY_DEBUG-ADVANCED:INTERNAL=1
> >> > Boost_PROGRAM_OPTIONS_LIBRARY_RELEASE-ADVANCED:INTERNAL=1
> >> > Boost_VERSION:INTERNAL=105200
> >> >
> >> > Jan-Michael
> >> >
> >> > On Tuesday, May 20, 2014 2:14:40 PM UTC-4, Christoph Junghans wrote:
> >> >>
> >> >> 2014-05-20 11:50 GMT-06:00 Jan Michael Carrillo <[email protected]>:
>
> >> >> > Thanks for the speedy reply.
> >> >> >
> >> >> > My OS is OS X 10.8.5
> >> >> > I got boost from Mac homebrew and its version is 1.52.0
> >> >> > I looked at the lib directory where boost was installed and it has
> >> >> > both
> >> >> > .dylib and .a
> >> >> Ok, can you do
> >> >> $grep -i ^Boost tools/CMakeCache.txt
> >> >>
> >> >> I just want to know if cmake uses .dylib or .a
> >> >>
> >> >> Christoph
> >> >>
> >> >> >
> >> >> > Jan-Michael
> >> >> >
> >> >> >
> >> >> > On Tuesday, May 20, 2014 12:58:06 PM UTC-4, Christoph Junghans
> wrote:
> >> >> >>
> >> >> >> Hi and welcome,
> >> >> >>
> >> >> >> 2014-05-20 10:40 GMT-06:00 Jan Michael Carrillo <
> [email protected]>:
> >> >> >> > Hi,
> >> >> >> >
> >> >> >> > I can easily install votca using this script:
> >> >> >> >
> >> >> >> > prefix=/Users/mydir/Installers/VOTCA
> >> >> >> > mkdir -p ${prefix}/src
> >> >> >> > cd ${prefix}/src
> >> >> >> > wget http://votca.googlecode.com/hg/build.sh
> >> >> >> > chmod +x build.sh
> >> >> >> > ./build.sh --prefix ${prefix} --minimal -DWITH_FFTW=ON
> >> >> >> > -DWITH_GSL=ON
> >> >> >> > tools
> >> >> >> > csg
> >> >> >> >
> >> >> >> > However, If I add the --dev option such that
> >> >> >> > ./build.sh --prefix ${prefix} --dev --minimal -DWITH_FFTW=ON
> >> >> >> > -DWITH_GSL=ON
> >> >> >> > tools csg
> >> >> >> > I get the error:
> >> >> >> >
> >> >> >> > Linking CXX shared library libvotca_tools.dylib
> >> >> >> > Undefined symbols for architecture x86_64:
> >> >> >> > "boost::system::system_category()", referenced from:
> >> >> >> > __GLOBAL__I_a in application.cc.o
> >> >> >> > "boost::system::generic_category()", referenced from:
> >> >> >> > __GLOBAL__I_a in application.cc.o
> >> >> >> > ld: symbol(s) not found for architecture x86_64
> >> >> >> > clang: error: linker command failed with exit code 1 (use -v to
> >> >> >> > see
> >> >> >> > invocation)
> >> >> >> > make[2]: *** [src/libtools/libvotca_tools.3.dylib] Error 1
> >> >> >> > make[1]: *** [src/libtools/CMakeFiles/votca_tools.dir/all]
> Error 2
> >> >> >> > make: *** [all] Error 2
> >> >> >> Can you give us a bit more information?
> >> >> >>
> >> >> >> What version of boost is that? Is it static or shared (.a or
> .dylib
> >> >> >> files)?
> >> >> >> What operating system is that?
> >> >> >>
> >> >> >> VOTCA isn't using libboost_system, but I have the suspicion that
> it
> >> >> >> gets pulled in by libboost_filesystem.
> >> >> >>
> >> >> >> Christoph
> >> >> >> >
> >> >> >> > My goal is to use votca with LAMMPS.
> >> >> >> >
> >> >> >> > Thanks,
> >> >> >> >
> >> >> >> > Jan-Michael
> >> >> >> >
> >> >> >> >
> >> >> >> > --
> >> >> >> > You received this message because you are subscribed to the
> Google
> >> >> >> > Groups
> >> >> >> > "votca" group.
> >> >> >> > To unsubscribe from this group and stop receiving emails from
> it,
> >> >> >> > send
> >> >> >> > an
> >> >> >> > email to [email protected].
> >> >> >> > To post to this group, send email to [email protected].
> >> >> >> > Visit this group at http://groups.google.com/group/votca.
> >> >> >> > For more options, visit https://groups.google.com/d/optout.
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >> --
> >> >> >> Christoph Junghans
> >> >> >> Web: http://www.compphys.de
> >> >> >
> >> >> > --
> >> >> > You received this message because you are subscribed to the Google
> >> >> > Groups
> >> >> > "votca" group.
> >> >> > To unsubscribe from this group and stop receiving emails from it,
> >> >> > send
> >> >> > an
> >> >> > email to [email protected].
> >> >> > To post to this group, send email to [email protected].
> >> >> > Visit this group at http://groups.google.com/group/votca.
> >> >> > For more options, visit https://groups.google.com/d/optout.
> >> >>
> >> >>
> >> >>
> >> >> --
> >> >> Christoph Junghans
> >> >> Web: http://www.compphys.de
> >> >
> >> > --
> >> > You received this message because you are subscribed to the Google
> >> > Groups
> >> > "votca" group.
> >> > To unsubscribe from this group and stop receiving emails from it,
> send
> >> > an
> >> > email to [email protected].
> >> > To post to this group, send email to [email protected].
> >> > Visit this group at http://groups.google.com/group/votca.
> >> > For more options, visit https://groups.google.com/d/optout.
> >>
> >>
> >>
> >> --
> >> Christoph Junghans
> >> Web: http://www.compphys.de
> >
> > --
> > You received this message because you are subscribed to the Google
> Groups
> > "votca" group.
> > To unsubscribe from this group and stop receiving emails from it, send
> an
> > email to [email protected] <javascript:>.
> > To post to this group, send email to [email protected]<javascript:>.
>
> > Visit this group at http://groups.google.com/group/votca.
> > For more options, visit https://groups.google.com/d/optout.
>
>
>
> --
> Christoph Junghans
> Web: http://www.compphys.de
>
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