Hello community,
I have been trying to install amber24 with xTB, snippet from *run_cmake*
file is like this:
# Assuming this is Linux (CentOS) and you are in the Amber build folder
cmake $AMBER_PREFIX/amber24_src \
-DCMAKE_INSTALL_PREFIX=$AMBER_PREFIX/amber24 \
-DCOMPILER=GNU \
-DMPI=FALSE \
-DCUDA=FALSE \
-DINSTALL_TESTS=TRUE \
-DDOWNLOAD_MINICONDA=TRUE \
-DTRUST_SYSTEM_LIBS=TRUE \
-DUSE_XTB=ON \
-DXTB_INCLUDE_DIR=$HOME/xtb/build/libxtb.so.6.7.1.p \
-DXTB_LIBRARY=$HOME/.local/lib64/libxtb.so \
-DCMAKE_EXE_LINKER_FLAGS="-Wl,-rpath,$HOME/.local/lib64
-L$HOME/.local/lib64" \
-DCMAKE_SHARED_LINKER_FLAGS="-Wl,-rpath,$HOME/.local/lib64
-L$HOME/.local/lib64" \
2>&1 | tee cmake.log
execution of *run_cmake *completed without any error message but then on *make
install *it stops at 88% with error like this:
[ 88%] Linking CXX executable metatwist
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::typed_value<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >, char>::xparse(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&) const':
metatwist.cpp:(.text._ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE6xparseERNS_3anyERKSt6vectorIS7_SaIS7_EE[_ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE6xparseERNS_3anyERKSt6vectorIS7_SaIS7_EE]+0x19):
undefined reference to `boost::program_options::validate(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >*, int)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::typed_value<std::vector<double,
std::allocator<double> >, char>::name[abi:cxx11]() const':
metatwist.cpp:(.text._ZNK5boost15program_options11typed_valueISt6vectorIdSaIdEEcE4nameB5cxx11Ev[_ZNK5boost15program_options11typed_valueISt6vectorIdSaIdEEcE4nameB5cxx11Ev]+0x1e):
undefined reference to `boost::program_options::arg[abi:cxx11]'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::typed_value<std::vector<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >,
std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > >, char>::name() const':
metatwist.cpp:(.text._ZNK5boost15program_options11typed_valueISt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS8_EEcE4nameEv[_ZNK5boost15program_options11typed_valueISt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS8_EEcE4nameEv]+0x1e):
undefined reference to `boost::program_options::arg[abi:cxx11]'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::typed_value<double, char>::name[abi:cxx11]()
const':
metatwist.cpp:(.text._ZNK5boost15program_options11typed_valueIdcE4nameB5cxx11Ev[_ZNK5boost15program_options11typed_valueIdcE4nameB5cxx11Ev]+0x1e):
undefined reference to `boost::program_options::arg[abi:cxx11]'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::typed_value<unsigned long,
char>::name[abi:cxx11]() const':
metatwist.cpp:(.text._ZNK5boost15program_options11typed_valueImcE4nameB5cxx11Ev[_ZNK5boost15program_options11typed_valueImcE4nameB5cxx11Ev]+0x1e):
undefined reference to `boost::program_options::arg[abi:cxx11]'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::typed_value<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >, char>::name() const':
metatwist.cpp:(.text._ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE4nameEv[_ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE4nameEv]+0x1e):
undefined reference to `boost::program_options::arg[abi:cxx11]'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::basic_command_line_parser<char>::extra_parser(boost::function1<std::pair<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&>)':
metatwist.cpp:(.text._ZN5boost15program_options25basic_command_line_parserIcE12extra_parserENS_9function1ISt4pairINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESA_ERKSA_EE[_ZN5boost15program_options25basic_command_line_parserIcE12extra_parserENS_9function1ISt4pairINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESA_ERKSA_EE]+0x3b):
undefined reference to
`boost::program_options::detail::cmdline::set_additional_parser(boost::function1<std::pair<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&>)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function `main':
metatwist.cpp:(.text.startup+0x6196): undefined reference to
`boost::program_options::options_description::options_description(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&, unsigned int,
unsigned int)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::program_options::basic_command_line_parser<char>::basic_command_line_parser(int,
char const* const*)':
metatwist.cpp:(.text._ZN5boost15program_options25basic_command_line_parserIcEC2EiPKPKc[_ZN5boost15program_options25basic_command_line_parserIcEC5EiPKPKc]+0x168):
undefined reference to
`boost::program_options::to_internal(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&)'
metatwist.cpp:(.text._ZN5boost15program_options25basic_command_line_parserIcEC2EiPKPKc[_ZN5boost15program_options25basic_command_line_parserIcEC5EiPKPKc]+0x1ef):
undefined reference to
`boost::program_options::detail::cmdline::cmdline(std::vector<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >,
std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > const&)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`__gnu_cxx::__normal_iterator<char const*, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > >
boost::re_detail::re_is_set_member<__gnu_cxx::__normal_iterator<char
const*, std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >, char, boost::regex_traits<char,
boost::cpp_regex_traits<char> >, unsigned
int>(__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >, __gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >, boost::re_detail::re_set_long<unsigned int>
const*, boost::re_detail::regex_data<char, boost::regex_traits<char,
boost::cpp_regex_traits<char> > > const&, bool)':
metatwist.cpp:(.text._ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SH_SH_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb[_ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SH_SH_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb]+0x339):
undefined reference to
`boost::re_detail::cpp_regex_traits_implementation<char>::transform_primary[abi:cxx11](char
const*, char const*) const'
metatwist.cpp:(.text._ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SH_SH_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb[_ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SH_SH_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb]+0x54d):
undefined reference to
`boost::re_detail::cpp_regex_traits_implementation<char>::transform[abi:cxx11](char
const*, char const*) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`__gnu_cxx::__normal_iterator<char*, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > >
boost::re_detail::re_is_set_member<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >, char, boost::regex_traits<char,
boost::cpp_regex_traits<char> >, unsigned
int>(__gnu_cxx::__normal_iterator<char*, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > >,
__gnu_cxx::__normal_iterator<char*, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > >,
boost::re_detail::re_set_long<unsigned int> const*,
boost::re_detail::regex_data<char, boost::regex_traits<char,
boost::cpp_regex_traits<char> > > const&, bool)':
metatwist.cpp:(.text._ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SG_SG_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb[_ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SG_SG_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb]+0x339):
undefined reference to
`boost::re_detail::cpp_regex_traits_implementation<char>::transform_primary[abi:cxx11](char
const*, char const*) const'
metatwist.cpp:(.text._ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SG_SG_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb[_ZN5boost9re_detail16re_is_set_memberIN9__gnu_cxx17__normal_iteratorIPcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEjEET_SG_SG_PKNS0_11re_set_longIT2_EERKNS0_10regex_dataIT0_T1_EEb]+0x54d):
undefined reference to
`boost::re_detail::cpp_regex_traits_implementation<char>::transform[abi:cxx11](char
const*, char const*) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > const&
boost::program_options::validators::get_single_string<char>(std::vector<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >,
std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > const&, bool)':
metatwist.cpp:(.text._ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb[_ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb]+0x98):
undefined reference to
`boost::program_options::validation_error::get_template[abi:cxx11](boost::program_options::validation_error::kind_t)'
metatwist.cpp:(.text._ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb[_ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb]+0xac):
undefined reference to
`boost::program_options::error_with_option_name::error_with_option_name(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > const&, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&, int)'
metatwist.cpp:(.text._ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb[_ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb]+0x168):
undefined reference to
`boost::program_options::validation_error::get_template[abi:cxx11](boost::program_options::validation_error::kind_t)'
metatwist.cpp:(.text._ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb[_ZN5boost15program_options10validators17get_single_stringIcEERKNSt7__cxx1112basic_stringIT_St11char_traitsIS5_ESaIS5_EEERKSt6vectorIS9_SaIS9_EEb]+0x17c):
undefined reference to
`boost::program_options::error_with_option_name::error_with_option_name(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > const&, std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&, int)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function `void
boost::program_options::validate<double, char>(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&, double*, long)':
metatwist.cpp:(.text._ZN5boost15program_options8validateIdcEEvRNS_3anyERKSt6vectorINSt7__cxx1112basic_stringIT0_St11char_traitsIS7_ESaIS7_EEESaISB_EEPT_l[_ZN5boost15program_options8validateIdcEEvRNS_3anyERKSt6vectorINSt7__cxx1112basic_stringIT0_St11char_traitsIS7_ESaIS7_EEESaISB_EEPT_l]+0xaa):
undefined reference to
`boost::program_options::invalid_option_value::invalid_option_value(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function `void
boost::program_options::validate<unsigned long, char>(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&, unsigned long*,
long)':
metatwist.cpp:(.text._ZN5boost15program_options8validateImcEEvRNS_3anyERKSt6vectorINSt7__cxx1112basic_stringIT0_St11char_traitsIS7_ESaIS7_EEESaISB_EEPT_l[_ZN5boost15program_options8validateImcEEvRNS_3anyERKSt6vectorINSt7__cxx1112basic_stringIT0_St11char_traitsIS7_ESaIS7_EEESaISB_EEPT_l]+0xa8):
undefined reference to
`boost::program_options::invalid_option_value::invalid_option_value(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function `void
boost::program_options::validate<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> >, char>(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > >*, int)':
metatwist.cpp:(.text._ZN5boost15program_options8validateINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEEvRNS_3anyERKSt6vectorINS3_IT0_S4_ISB_ESaISB_EEESaISE_EEPSA_IT_SaISJ_EEi[_ZN5boost15program_options8validateINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEEvRNS_3anyERKSt6vectorINS3_IT0_S4_ISB_ESaISB_EEESaISE_EEPSA_IT_SaISJ_EEi]+0xb6):
undefined reference to `boost::program_options::validate(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >*, int)'
metatwist.cpp:(.text._ZN5boost15program_options8validateINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEEvRNS_3anyERKSt6vectorINS3_IT0_S4_ISB_ESaISB_EEESaISE_EEPSA_IT_SaISJ_EEi[_ZN5boost15program_options8validateINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEEvRNS_3anyERKSt6vectorINS3_IT0_S4_ISB_ESaISB_EEESaISE_EEPSA_IT_SaISJ_EEi]+0x371):
undefined reference to
`boost::program_options::invalid_option_value::invalid_option_value(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function `void
boost::program_options::validate<double, char>(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&,
std::vector<double, std::allocator<double> >*, int)':
metatwist.cpp:(.text._ZN5boost15program_options8validateIdcEEvRNS_3anyERKSt6vectorINSt7__cxx1112basic_stringIT0_St11char_traitsIS7_ESaIS7_EEESaISB_EEPS4_IT_SaISG_EEi[_ZN5boost15program_options8validateIdcEEvRNS_3anyERKSt6vectorINSt7__cxx1112basic_stringIT0_St11char_traitsIS7_ESaIS7_EEESaISB_EEPS4_IT_SaISG_EEi]+0x2bf):
undefined reference to
`boost::program_options::invalid_option_value::invalid_option_value(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function `bool
boost::regex_search<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >,
std::allocator<boost::sub_match<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > >, char, boost::regex_traits<char,
boost::cpp_regex_traits<char> > >(__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >, __gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >,
boost::match_results<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >,
std::allocator<boost::sub_match<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > > >&, boost::basic_regex<char,
boost::regex_traits<char, boost::cpp_regex_traits<char> > > const&,
boost::regex_constants::_match_flags, __gnu_cxx::__normal_iterator<char
const*, std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >)':
metatwist.cpp:(.text._ZN5boost12regex_searchIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEESaINS_9sub_matchISB_EEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEEEbT_SJ_RNS_13match_resultsISJ_T0_EERKNS_11basic_regexIT1_T2_EENS_15regex_constants12_match_flagsESJ_[_ZN5boost12regex_searchIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEESaINS_9sub_matchISB_EEEcNS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEEEbT_SJ_RNS_13match_resultsISJ_T0_EERKNS_11basic_regexIT1_T2_EENS_15regex_constants12_match_flagsESJ_]+0x11d):
undefined reference to
`boost::re_detail::perl_matcher<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >,
std::allocator<boost::sub_match<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > >, boost::regex_traits<char,
boost::cpp_regex_traits<char> > >::construct_init(boost::basic_regex<char,
boost::regex_traits<char, boost::cpp_regex_traits<char> > > const&,
boost::regex_constants::_match_flags)'
CMakeFiles/metatwist.dir/metatwist.cpp.o: In function
`boost::re_detail::perl_matcher<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >,
std::allocator<boost::sub_match<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > >, boost::regex_traits<char,
boost::cpp_regex_traits<char> > >::match_match()':
metatwist.cpp:(.text._ZN5boost9re_detail12perl_matcherIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEESaINS_9sub_matchISC_EEENS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEE11match_matchEv[_ZN5boost9re_detail12perl_matcherIN9__gnu_cxx17__normal_iteratorIPKcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEESaINS_9sub_matchISC_EEENS_12regex_traitsIcNS_16cpp_regex_traitsIcEEEEE11match_matchEv]+0x282):
undefined reference to
`boost::match_results<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >,
std::allocator<boost::sub_match<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > >
>::maybe_assign(boost::match_results<__gnu_cxx::__normal_iterator<char
const*, std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > >,
std::allocator<boost::sub_match<__gnu_cxx::__normal_iterator<char const*,
std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> > > > > > const&)'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE[_ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE]+0x30):
undefined reference to
`boost::program_options::error_with_option_name::substitute_placeholders(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE[_ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE]+0x38):
undefined reference to
`boost::program_options::error_with_option_name::substitute_placeholders(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE[_ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE]+0x30):
undefined reference to
`boost::program_options::error_with_option_name::substitute_placeholders(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE[_ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE]+0x38):
undefined reference to
`boost::program_options::error_with_option_name::substitute_placeholders(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost15program_options16validation_errorE[_ZTVN5boost15program_options16validation_errorE]+0x30):
undefined reference to
`boost::program_options::error_with_option_name::substitute_placeholders(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost15program_options20invalid_option_valueE[_ZTVN5boost15program_options20invalid_option_valueE]+0x30):
more undefined references to
`boost::program_options::error_with_option_name::substitute_placeholders(std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > const&) const' follow
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost15program_options11typed_valueISt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS8_EEcEE[_ZTVN5boost15program_options11typed_valueISt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS8_EEcEE]+0x38):
undefined reference to
`boost::program_options::value_semantic_codecvt_helper<char>::parse(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&, bool) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEE[_ZTVN5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEE]+0x38):
undefined reference to
`boost::program_options::value_semantic_codecvt_helper<char>::parse(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&, bool) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost15program_options11typed_valueIdcEE[_ZTVN5boost15program_options11typed_valueIdcEE]+0x38):
undefined reference to
`boost::program_options::value_semantic_codecvt_helper<char>::parse(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&, bool) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost15program_options11typed_valueISt6vectorIdSaIdEEcEE[_ZTVN5boost15program_options11typed_valueISt6vectorIdSaIdEEcEE]+0x38):
undefined reference to
`boost::program_options::value_semantic_codecvt_helper<char>::parse(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&, bool) const'
CMakeFiles/metatwist.dir/metatwist.cpp.o:(.rodata._ZTVN5boost15program_options11typed_valueImcEE[_ZTVN5boost15program_options11typed_valueImcEE]+0x38):
undefined reference to
`boost::program_options::value_semantic_codecvt_helper<char>::parse(boost::any&,
std::vector<std::__cxx11::basic_string<char, std::char_traits<char>,
std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char,
std::char_traits<char>, std::allocator<char> > > > const&, bool) const'
collect2: error: ld returned 1 exit status
make[2]: *** [AmberTools/src/moft/metatwist] Error 1
make[1]: *** [AmberTools/src/moft/CMakeFiles/metatwist.dir/all] Error 2
make: *** [all] Error 2
I am unable to understand this.
Your guidance will be helpful.
Thank you
--
Kriti Shukla
Research Scholar
Department of Chemistry
Indian Institute of Technology, Kharagpur
India. 721302
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Received on Mon Oct 27 2025 - 05:30:02 PDT
