wgsc's Issues
WGCs make error
周老师您好,请问我在安装WGSc时遇到编译失败的情况,请问是怎么回事呢?
以下是编译日志:
make --no-print-directory ./bin/WGS
mkdir -p bin
g++ -std=c++11 -lz ./WGS/main.cpp -o ./bin/WGS
In file included from /share/bioinfo/Sh1ne/software/gcc-10.1.0/include/c++/10.1.0/ext/hash_map:60,
from ./WGS/HeaderIns.h:36,
from ./WGS/main.cpp:9:
/share/bioinfo/Sh1ne/software/gcc-10.1.0/include/c++/10.1.0/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp]
32 | #warning
| ^~~~~~~
/tmp/ccvzpL05.o: In function std::__detail::_AnyMatcher<std::__cxx11::regex_traits<char>, false, false, false>::operator()(char) const': main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEc]+0x14): relocation truncated to fit: R_X86_64_PC32 against symbol
guard variable for std::__detail::_AnyMatcher<std::__cxx11::regex_traits, false, false, false>::operator()(char) const::__nul' defined in .bss._ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEcE5__nul[_ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEcE5__nul] section in /tmp/ccvzpL05.o
main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEc]+0x47): relocation truncated to fit: R_X86_64_PC32 against symbol std::__detail::_AnyMatcher<std::__cxx11::regex_traits<char>, false, false, false>::operator()(char) const::__nul' defined in .bss._ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEcE5__nul[_ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEcE5__nul] section in /tmp/ccvzpL05.o main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEc]+0x6a): relocation truncated to fit: R_X86_64_PC32 against symbol
std::__detail::_AnyMatcher<std::__cxx11::regex_traits, false, false, false>::operator()(char) const::__nul' defined in .bss._ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEcE5__nul[_ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb0EEclEcE5__nul] section in /tmp/ccvzpL05.o
/tmp/ccvzpL05.o: In function std::__detail::_AnyMatcher<std::__cxx11::regex_traits<char>, false, false, true>::operator()(char) const': main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEc]+0x14): relocation truncated to fit: R_X86_64_PC32 against symbol
guard variable for std::__detail::_AnyMatcher<std::__cxx11::regex_traits, false, false, true>::operator()(char) const::__nul' defined in .bss._ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEcE5__nul[_ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEcE5__nul] section in /tmp/ccvzpL05.o
main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEc]+0x47): relocation truncated to fit: R_X86_64_PC32 against symbol std::__detail::_AnyMatcher<std::__cxx11::regex_traits<char>, false, false, true>::operator()(char) const::__nul' defined in .bss._ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEcE5__nul[_ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEcE5__nul] section in /tmp/ccvzpL05.o main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEc]+0x6a): relocation truncated to fit: R_X86_64_PC32 against symbol
std::__detail::_AnyMatcher<std::__cxx11::regex_traits, false, false, true>::operator()(char) const::__nul' defined in .bss._ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEcE5__nul[_ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb0ELb1EEclEcE5__nul] section in /tmp/ccvzpL05.o
/tmp/ccvzpL05.o: In function std::__detail::_AnyMatcher<std::__cxx11::regex_traits<char>, false, true, false>::operator()(char) const': main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEc]+0x17): relocation truncated to fit: R_X86_64_PC32 against symbol
guard variable for std::__detail::_AnyMatcher<std::__cxx11::regex_traits, false, true, false>::operator()(char) const::__nul' defined in .bss._ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEcE5__nul[_ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEcE5__nul] section in /tmp/ccvzpL05.o
main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEc]+0x50): relocation truncated to fit: R_X86_64_PC32 against symbol std::__detail::_AnyMatcher<std::__cxx11::regex_traits<char>, false, true, false>::operator()(char) const::__nul' defined in .bss._ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEcE5__nul[_ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEcE5__nul] section in /tmp/ccvzpL05.o main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEc]+0x73): relocation truncated to fit: R_X86_64_PC32 against symbol
std::__detail::_AnyMatcher<std::__cxx11::regex_traits, false, true, false>::operator()(char) const::__nul' defined in .bss._ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEcE5__nul[_ZZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb0EEclEcE5__nul] section in /tmp/ccvzpL05.o
/tmp/ccvzpL05.o: In function std::__detail::_AnyMatcher<std::__cxx11::regex_traits<char>, false, true, true>::operator()(char) const': main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb1EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb1EEclEc]+0x17): relocation truncated to fit: R_X86_64_PC32 against symbol
guard variable for std::__detail::_AnyMatcher<std::__cxx11::regex_traits, false, true, true>::operator()(char) const::__nul' defined in .bss._ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb1EEclEcE5__nul[_ZGVZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb1EEclEcE5__nul] section in /tmp/ccvzpL05.o
main.cpp:(.text._ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb1EEclEc[_ZNKSt8__detail11_AnyMatcherINSt7__cxx1112regex_traitsIcEELb0ELb1ELb1EEclEc]+0x50): additional relocation overflows omitted from the output
collect2: error: ld returned 1 exit status
make[1]: *** [bin/WGS] Error 1
make: *** [all] Error 2
--type cleanSVs
您好,在您的泛基因文章中,SV需要经过cleanSVs处理,这一步具体是做什么呢?
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