By running the $ grep Boost_PR.*LIBR tools/CMakeCache.txt I got the
following messages:
Boost_PROGRAM_OPTIONS_LIBRARY:FILEPATH=/usr/local/boost/boost-1.51.0/lib/libboost_program_options.so
Boost_PROGRAM_OPTIONS_LIBRARY_DEBUG:FILEPATH=Boost_PROGRAM_OPTIONS_LIBRARY_DEBUG-NOTFOUND
Boost_PROGRAM_OPTIONS_LIBRARY_RELEASE:FILEPATH=/usr/lib64/libboost_program_options-mt.so
//ADVANCED property for variable: Boost_PROGRAM_OPTIONS_LIBRARY
Boost_PROGRAM_OPTIONS_LIBRARY-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Boost_PROGRAM_OPTIONS_LIBRARY_DEBUG
Boost_PROGRAM_OPTIONS_LIBRARY_DEBUG-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Boost_PROGRAM_OPTIONS_LIBRARY_RELEASE
Boost_PROGRAM_OPTIONS_LIBRARY_RELEASE-ADVANCED:INTERNAL=1
I also tried the following as you suggested:
./build.sh --prefix ${prefix}
-DBoost_INCLUDE_DIR=/usr/local/boost/boost-1.51.0/include/
-DBoost_PROGRAM_OPTIONS_LIBRARY=/usr/local/boost/boost-1.51.0/lib/libboost_program_options.so
--dev tools csg
The error is :
../libtools/libvotca_tools.so.3: undefined reference to
`boost::system::system_category()'
../libtools/libvotca_tools.so.3: undefined reference to
`boost::system::generic_category()'
../libtools/libvotca_tools.so.3: undefined reference to
`boost::filesystem::path::operator/=(boost::filesystem::path const&)'
collect2: ld returned 1 exit status
make[2]: *** [src/tools/votca_property] Error 1
make[1]: *** [src/tools/CMakeFiles/votca_property.dir/all] Error 2
make: *** [all] Error 2
Regards,
Hossein
On Thursday, February 13, 2014 12:56:13 PM UTC-6, Christoph Junghans wrote:
>
> 2014-02-13 11:43 GMT-07:00 Hossein Motevaselian
> <[email protected]<javascript:>>:
>
> > As you said I ran the command you mentioned. The output was : -bash:
> > /usr/include/boost/boost-1.51.0/include: No such file or directory
> > So I changed the boost path to this one :
> > /usr/local/boost/boost-1.51.0/include/ which is a directiry for the
> boost.
> > After running again the following command : ./build.sh --prefix
> ${prefix}
> > gromacs -DBoost_INCLUDE_DIR=/usr/local/boost/boost-1.51.0/include/ --dev
> > tools csg
> > I got the following error
> >
> >
> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function
> >
> `_ZN5boost15program_options16validation_errorC2ENS1_6kind_tERKSsS4_i.clone.2':
>
>
> > votca_property.cc:(.text+0x11a): undefined reference to
> >
> `boost::program_options::validation_error::get_template(boost::program_options::validation_error::kind_t)'
>
>
> > votca_property.cc:(.text+0x12e): undefined reference to
> >
> `boost::program_options::error_with_option_name::error_with_option_name(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&,
> > std::basic_string<char, std::char_traits<char>, std::allocator<char> >
> > const&, std::basic_string<char, std::char_traits<char>,
> std::allocator<char>
> >> const&, int)'
> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function
> >
> `boost::program_options::error_with_option_name::~error_with_option_name()':
>
> >
> votca_property.cc:(.text._ZN5boost15program_options22error_with_option_nameD2Ev[_ZN5boost15program_options22error_with_option_nameD5Ev]+0x19):
>
>
> > undefined reference to `vtable for
> > boost::program_options::error_with_option_name'
> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function
> >
> `boost::program_options::validation_error::validation_error(boost::program_options::validation_error
>
>
> > const&)':
> >
> votca_property.cc:(.text._ZN5boost15program_options16validation_errorC2ERKS1_[_ZN5boost15program_options16validation_errorC5ERKS1_]+0x3a):
>
>
> > undefined reference to `vtable for
> > boost::program_options::error_with_option_name'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options16validation_errorE[vtable
>
>
> > for boost::program_options::validation_error]+0x20): undefined reference
> to
> > `boost::program_options::error_with_option_name::what() const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options16validation_errorE[vtable
>
>
> > for boost::program_options::validation_error]+0x30): undefined reference
> to
> >
> `boost::program_options::error_with_option_name::substitute_placeholders(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&) const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTIN5boost15program_options16validation_errorE[typeinfo
>
>
> > for boost::program_options::validation_error]+0x10): undefined reference
> to
> > `typeinfo for boost::program_options::error_with_option_name'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE[vtable
>
>
> > for
> >
> boost::exception_detail::error_info_injector<boost::program_options::validation_error>]+0x20):
>
>
> > undefined reference to
> > `boost::program_options::error_with_option_name::what() const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE[vtable
>
>
> > for
> >
> boost::exception_detail::error_info_injector<boost::program_options::validation_error>]+0x30):
>
>
> > undefined reference to
> >
> `boost::program_options::error_with_option_name::substitute_placeholders(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&) const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE[vtable
>
>
> > for
> >
> boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::program_options::validation_error>
>
>
> >>]+0x28): undefined reference to
> > `boost::program_options::error_with_option_name::what() const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE[vtable
>
>
> > for
> >
> boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::program_options::validation_error>
>
>
> >>]+0x38): undefined reference to
> >
> `boost::program_options::error_with_option_name::substitute_placeholders(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&) const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE[vtable
>
>
> > for
> >
> boost::exception_detail::error_info_injector<boost::program_options::invalid_option_value>]+0x20):
>
>
> > undefined reference to
> > `boost::program_options::error_with_option_name::what() const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE[vtable
>
>
> > for
> >
> boost::exception_detail::error_info_injector<boost::program_options::invalid_option_value>]+0x30):
>
>
> > undefined reference to
> >
> `boost::program_options::error_with_option_name::substitute_placeholders(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&) const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options20invalid_option_valueE[vtable
>
>
> > for boost::program_options::invalid_option_value]+0x20): undefined
> reference
> > to `boost::program_options::error_with_option_name::what() const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options20invalid_option_valueE[vtable
>
>
> > for boost::program_options::invalid_option_value]+0x30): undefined
> reference
> > to
> >
> `boost::program_options::error_with_option_name::substitute_placeholders(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&) const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE[vtable
>
>
> > for
> >
> boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::program_options::invalid_option_value>
>
>
> >>]+0x28): undefined reference to
> > `boost::program_options::error_with_option_name::what() const'
> >
> CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE[vtable
>
>
> > for
> >
> boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::program_options::invalid_option_value>
>
>
> >>]+0x38): undefined reference to
> >
> `boost::program_options::error_with_option_name::substitute_placeholders(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&) const'
> > ../libtools/libvotca_tools.so.3: undefined reference to
> >
> `boost::program_options::options_description::options_description(std::basic_string<char,
>
>
> > std::char_traits<char>, std::allocator<char> > const&, unsigned int,
> > unsigned int)'
> > ../libtools/libvotca_tools.so.3: undefined reference to
> > `boost::system::system_category()'
> > ../libtools/libvotca_tools.so.3: undefined reference to
> > `boost::program_options::detail::cmdline::get_canonical_option_prefix()'
> > ../libtools/libvotca_tools.so.3: undefined reference to
> > `boost::system::generic_category()'
> > ../libtools/libvotca_tools.so.3: undefined reference to
> > `boost::filesystem::path::operator/=(boost::filesystem::path const&)'
> > ../libtools/libvotca_tools.so.3: undefined reference to
> >
> `boost::program_options::options_description::options_description(unsigned
> > int, unsigned int)'
> > collect2: ld returned 1 exit status
> > make[2]: *** [src/tools/votca_property] Error 1
> > make[1]: *** [src/tools/CMakeFiles/votca_property.dir/all] Error 2
> > make: *** [all] Error 2
> It seems like your libboost_program_options are not detected correctly.
> Can you check:
> $ grep Boost_PR.*LIBR tools/CMakeCache.txt
>
> Maybe you have to use the build option
> -DBoost_PROGRAM_OPTIONS_LIBRARY=/usr/local/boost/boost-1.51.0/lib/libboost_program_options.so
>
>
>
> Cheers,
>
> Christoph
>
> >
> > Best Regards,
> > Hossein
> >
> >
> >
> > On Wednesday, February 12, 2014 7:12:49 PM UTC-6, Christoph Junghans
> wrote:
> >>
> >> 2014-02-12 17:49 GMT-07:00 Hossein Motevaselian <[email protected]>:
>
> >> > Dear VOTCA community,
> >> > I am trying to install VOTCA on our campus cluster using ./build.sh.
> I
> >> > have
> >> > tried to install VOTCA before , but I did not get this error:
> >> >
> >> > CMake Error at CMakeModules/FindBoost.cmake:524 (FILE):
> >> > file Internal CMake error when trying to open file:
> >> > /usr/include/boost/boost-1.51.0/include/boost/version.hpp for
> reading.
> >> > Call Stack (most recent call first):
> >> > CMakeLists.txt:64 (find_package)
> >> >
> >> >
> >> > CMake Error at CMakeModules/FindBoost.cmake:537 (MATH):
> >> > math cannot parse the expression: " / 100000": syntax error,
> >> > unexpected
> >> > exp_DIVIDE, expecting exp_OPENPARENT or exp_NUMBER (2)
> >> > Call Stack (most recent call first):
> >> > CMakeLists.txt:64 (find_package)
> >> >
> >> >
> >> > CMake Error at CMakeModules/FindBoost.cmake:538 (MATH):
> >> > math cannot parse the expression: " / 100 % 1000": syntax error,
> >> > unexpected
> >> > exp_DIVIDE, expecting exp_OPENPARENT or exp_NUMBER (2)
> >> > Call Stack (most recent call first):
> >> > CMakeLists.txt:64 (find_package)
> >> >
> >> >
> >> > CMake Error at CMakeModules/FindBoost.cmake:539 (MATH):
> >> > math cannot parse the expression: " % 100": syntax error,
> unexpected
> >> > exp_MOD, expecting exp_OPENPARENT or exp_NUMBER (2)
> >> > Call Stack (most recent call first):
> >> > CMakeLists.txt:64 (find_package)
> >> >
> >> >
> >> > -- Boost version: ..
> >> > -- Found the following Boost libraries:
> >> > -- program_options
> >> > CMake Warning at CMakeModules/FindGROMACS.cmake:100 (message):
> >> > You are using /home/motevas2/application/VOTCA/lib/libgmx.so, but
> >> > GROMACS_PKG was libgmx_d. There seems to be a mismatch in
> precision,
> >> > single vs double, no ending vs. _d. If this is not the case
> ignore
> >> > this
> >> > warning otherwise enable set GROMACS_PKG correctly using
> >> > -DGROMACS_PKG_OVERWRITE=lib(gmx|gromacs)(_d).
> >> > Call Stack (most recent call first):
> >> > src/libcsg/CMakeLists.txt:12 (find_package)
> >> >
> >> >
> >> > -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE)
> >> > -- Configuring incomplete, errors occurred!
> >> >
> >> > I have loaded the appropriate modules such as mercurial, git and
> boost
> >> > libraries.
> >> > I am using the following commands line after getting ./build.sh
> script :
> >> > ./build.sh --prefix ${prefix} gromacs --dev tools csg
> >> > I have also tried this , it did not work : ./build.sh --prefix
> ${prefix}
> >> > gromacs -DBUILD_MANPAGES=off
> >> > -DBoost_INCLUDE_DIR=/usr/include/boost/boost-1.51.0/include --dev
> tools
> >> > csg
> >> >
> >> > I would really appreciate it if you can help me with this.
> >> Can you post the output of:
> >> $ ls /usr/include/boost/boost-1.51.0/include
> >> and
> >> $ ls /usr/include/boost/boost-1.51.0/include/boost/
> >>
> >> >
> >> > Thank you much
> >> > Hossein
> >> >
> >> > --
> >> > 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/groups/opt_out.
> >>
> >>
> >>
> >> --
> >> 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/groups/opt_out.
>
>
>
> --
> Christoph Junghans
> Web: http://www.compphys.de
>
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